SINGLE NUCLEOTIDE POLYMORPHISM (SNP) MOLECULAR MARKER COMBINATION FOR GENETIC RELATIONSHIP IDENTIFICATION OF HUAXI CATTLE, USE, AND IDENTIFICATION METHOD

Description

TECHNICAL FIELD

The present disclosure belongs to the technical field of genotyping, and specifically relates to a single nucleotide polymorphism (SNP) molecular marker combination for genetic relationship identification of a Huaxi cattle, use, and an identification method.

BACKGROUND

The accuracy of pedigrees is critical to cattle breeding. Incorrect pedigrees can greatly reduce the accuracy of genetic evaluation, affect the selection effect, and hinder the genetic improvement of a population, thus causing a huge economic impact on the breeding industry. However, pedigree records generally have errors due to various factors, such as breeding records, calving records, and human errors in actual breeding production. Especially in extensive free-range pastures, it is difficult to determine the male parent or even both parents of a calf, thereby leading to pedigree errors. Sire identification was replaced for 11% of Holstein cows that were sired by AI bulls and had records in the US database for national genetic evaluations; US evaluations were computed based on those modified pedigrees and compared with official national evaluations^[1]. Due to different feeding methods and production management conditions in different countries, there are certain differences in pedigree error rates, but pedigree errors are difficult to be completely avoided during actual production and management. Research by Guo Gang et al.^[2] has showed that the Holstein cows in Beijing have an average pedigree error rate of 20.9%. The average pedigree error rate of 11% in the world may lead to lower estimates of inbreeding coefficients, male animal variance, and cross-national genetic correlations in actual production. Estimated breeding values for the populations with 10% incorrect paternity were biased, especially in the later generations. Genetic gains were 4.3% higher with correct paternity identification at a heritability of 0.25 within 20 yr^[3]. In the genetic evaluation of dairy cows, a population genetic progress may be reduced by 11% to 15% if the cow has an error rate of male parent recording at 11%. Instituting a system of quality control, especially at the level of the inseminator, should reduce paternity errors to no more than 8%, and increase genetic progress by at least 1%^[4]. Accordingly, a complete and accurate pedigree is extremely necessary for the production and development of the entire cattle industry.

Huaxi cattle are a new breed of beef cattle developed by the Institute of Animal Science (IAS) of Chinese Academy of Agricultural Sciences (CAAS) after more than 40 yr of painstaking efforts. The breed was approved by the National Livestock and Poultry Genetic Resources Committee in 2021 and acquired the Certificate of National Livestock and Poultry New Breed. The Huaxi cattle show rapid growth, high feed conversion rate and meat clean rate, desirable meat production and reproductive performance, and strong stress resistance. Compared with similar international beef cattle breeds, the daily weight gain, slaughter rate, and clean meat rate of Huaxi cattle are at an internationally advanced level. Huaxi cattle are adapted to pastoral areas, agricultural areas, and the agricultural-pastoral ecotone in the north, as well as grassy mountains and grassy slopes in the south in China. Since the breeding methods in pastoral areas are mostly extensive, both bulls and artificial insemination are adopted during the breeding. In addition, human errors occur during the implementation of artificial insemination may lead to an extremely high pedigree error rate. As a result, it is highly important to confirm the genetic relationship to accurately estimate an individual breeding value of the Huaxi cattle and to accelerate genetic progress.

At present, the commonly-used molecular methods for paternity testing mainly include DNA fingerprinting, microsatellites, and SNP molecular markers. Although the molecular markers used in the past few decades have been gradually updated from allozymes and the microsatellites (also known as short tandem repeats, STRs) to SNPs, the theoretical basis of paternity analysis has not deviated from the requirements of following Mendel's law of inheritance. Single nucleotide polymorphism (SNP) markers refer to DNA sequence polymorphisms caused by variations in a single base at the genome level, are generally caused by transition or transversion of the single base, or caused by insertion or deletion of bases. However, the transition or transversion shows a probability of occurrence that is twice as high as that of the insertion or deletion. Generally speaking, the SNP markers have a minimum allele frequency (MAF) of not less than 1% in a population, but there are also cases where the MAF is less than 1% (such as cDNA).

There are currently no reports on genetic relationship identification of Huaxi cattle using SNP markers. The lack of pedigree records creates great difficulties in promoting the quality traceability system of Huaxi cattle; moreover, the application of pedigree information is extremely important in the genetic research of Huaxi cattle. In view of this, a complete and accurate pedigree is highly necessary for the development and promotion of the entire breeding industry of Huaxi cattle. In the case where the accuracy of actual records cannot be guaranteed, the genetic relationship identification has become an important link in the genetic breeding and improvement of Huaxi cattle.

CITED REFERENCES

• [1]. Banos G, Wiggans G R, Powell R L. Impact of paternity errors in cow identification on genetic evaluations and international comparisons [J]. Journal of dairy science, 2001, 84(11): 2523-2529.
• [2]. GUO Gang, ZHOU Lei, LIU Lin, LI Dong, ZHANG Shengli, LIU Jianfeng, DING Xiangdong, ZHANG Yi, WANG Yachun, ZHANG Qin, and ZHANG Yuan. Parentage Inference with Single Nucleotide Polymorphism Markers in the Chinese Holstein in Beijing [J]. Acta Veterinaria et Zootechnica Sinica, 2012, 43(01): 44-49.
• [3]. Israel C, Weller J I. Effect of misidentification on genetic gain and estimation of breeding value in dairy cattle populations [J]. Journal of Dairy Science, 2000, 83(1): 181-187.
• [4]. Weller J I, Feldmesser E, Golik M, et al. Factors affecting incorrect paternity assignment in the Israeli Holstein population [J]. Journal of Dairy Science, 2004, 87(8): 2627-2640.

SUMMARY

A purpose of the present disclosure is to provide a single nucleotide polymorphism (SNP) molecular marker combination for genetic relationship identification of a Huaxi cattle, use, and an identification method. The SNP molecular marker combination can be used for complete and accurate pedigree identification of the Huaxi cattle, thus improving an accuracy of Huaxi cattle breeding.

The present disclosure provides an SNP molecular marker combination for genetic relationship identification of a Huaxi cattle, including at least 70 of SNP molecular markers shown in Table 1.

Preferably, Bos_taurus_UMD_3.1 serves as a reference genome for a site of each of the SNP molecular markers.

The present disclosure further provides a probe for identifying the SNP molecular marker combination.

The present disclosure further provides a gene chip prepared based on the SNP molecular marker combination.

Preferably, the gene chip includes a liquid chip.

The present disclosure further provides use of the SNP molecular marker combination or the probe or the gene chip in genetic relationship identification of a Huaxi cattle.

The present disclosure further provides use of the SNP molecular marker combination or the probe or the gene chip in improved genetic breeding of a Huaxi cattle.

The present disclosure further provides a method for genetic relationship identification of a Huaxi cattle, including the following steps: identifying a genotype of the SNP molecular marker combination using a genomic DNA of a Huaxi cattle to be identified as a template; calculating an logarithm of the odds (LOD) value of a paternity index according to the genotype of the Huaxi cattle to be identified; and identifying a genetic relationship of the Huaxi cattle to be identified based on the LOD value.

Preferably, when the LOD value is greater than 0, a candidate parent has a possibility of being a true parent, and an individual with a maximum LOD value is regarded as a most similar parent; and when the LOD value is less than 0, the candidate parent does not have the possibility of being the true parent.

Beneficial effects: the present disclosure provides a SNP molecular marker combination for genetic relationship identification of a Huaxi cattle, where multiple SNP sites on 29 autosomes were selected through data analysis of a sequencing result of 1,252 Huaxi cattle; and the genetic relationship identification of the Huaxi cattle is completed with at least 70 of 1,000 sites. In the present disclosure, the 1,000 SNP molecular markers are distributed on the 29 autosomes, and two adjacent SNP molecular markers on a same autosome have an average distance of 2 Mb. A minimum allele frequency (MAF), an expected heterozygosity (HExp), and a polymorphism information content (PIC) of the SNP molecular marker combination have average values of 0.4846, 0.4983, and 0.3741, respectively; and when a maternal genotype is unknown, there is a cumulative probability of exclusion (CPE) of 0.9999999999999. The SNP molecular marker combination can be used for complete and accurate pedigree identification of the Huaxi cattle, thereby improving a breeding accuracy and accelerating a genetic progress of the Huaxi cattle, and exhibit excellent application prospects and economic benefits.

BRIEF DESCRIPTION OF THE DRAWINGS

FIG. 1 shows specific operational steps of the method for genetic relationship identification of a Huaxi cattle.

DETAILED DESCRIPTION OF THE EMBODIMENTS

The present disclosure provides an SNP molecular marker combination for genetic relationship identification of a Huaxi cattle, including at least 70 of SNP molecular markers shown in Table 1.

In the present disclosure, sequencing data results of 1,252 Huaxi cattle were analyzed and selected to identify 1,000 SNP sites on 29 autosomes, which can be used in the SNP molecular marker combination for genetic relationship identification of a Huaxi cattle population. The 1,000 SNP molecular markers are distributed on the 29 autosomes, and two adjacent SNP molecular markers on a same autosome have an average distance of 2 Mb. Among the SNP molecular marker information in Table 1, Bos_taurus_UMD_3.1 serves as a reference genome for a site. The SNP molecular marker combination includes 1,000 SNP sites. The MAF, HExp, and PIC of the SNP molecular marker combination have average values of 0.4846, 0.4983, and 0.3741, respectively; and the 1,000 SNP molecular marker combination has a CPE of 0.9999999999999, which makes paternity testing extremely efficient.

Table 1 Information on 1,000 SNP molecular markers

			Base				Probability of
SNP name	Chromosome	Position	variation	MAF	HExp	PIC	exclusion (PE)

chr1: 146736	1	146736	C/T	0.4996	0.5	0.375	0.125
BovineHD0100001067	1	3232948	G/A	0.4992	0.5	0.375	0.125
BovineHD0100001535	1	4740225	C/A	0.4976	0.5	0.375	0.125
BovineHD0100002084	1	6397764	G/A	0.4984	0.5	0.375	0.125
chr1: 8222595	1	8222595	C/T	0.4976	0.5	0.375	0.125
chr1: 10268092	1	10268092	T/G	0.4669	0.498	0.374	0.124
chr1: 12788006	1	12788006	C/T	0.488	0.5	0.375	0.125
chr1: 14370430	1	14370430	C/T	0.4677	0.498	0.374	0.124
chr1: 17929625	1	17929625	A/C	0.496	0.5	0.375	0.125
Hapmap51222-BTA-39456	1	19805218	T/C	0.4141	0.485	0.368	0.118
chr1: 20746789	1	20746789	T/C	0.494	0.5	0.375	0.125
chr1: 22937855	1	22937855	G/A	0.4928	0.5	0.375	0.125
chr1: 24948004	1	24948004	G/A	0.4952	0.5	0.375	0.125
chr1: 27982761	1	27982761	T/C	0.4509	0.495	0.373	0.123
BovineHD0100008442	1	28450059	G/A	0.4101	0.484	0.367	0.117
chr1: 30343940	1	30343940	C/T	0.4776	0.499	0.374	0.125
chr1: 31151169	1	31151169	T/C	0.4976	0.5	0.375	0.125
BovineHD0100009944	1	34665393	A/G	0.498	0.5	0.375	0.125
chr1: 36240622	1	36240622	T/C	0.4149	0.486	0.368	0.118
chr1: 38821576	1	38821576	G/C	0.4992	0.5	0.375	0.125
chr1: 41190611	1	41190611	A/G	0.4952	0.5	0.375	0.125
chr1: 43473529	1	43473529	C/G	0.4984	0.5	0.375	0.125
chr1: 46242711	1	46242711	A/G	0.4992	0.5	0.375	0.125
BovineHD0100013967	1	49559687	T/G	0.5	0.5	0.375	0.125
chr1: 51894494	1	51894494	C/A	0.4956	0.5	0.375	0.125
chr1: 53589018	1	53589018	A/G	0.4992	0.5	0.375	0.125
BovineHD0100015794	1	56127149	A/G	0.4908	0.5	0.375	0.125
BovineHD0100016547	1	58465963	G/A	0.4992	0.5	0.375	0.125
Hapmap48290-BTA-31675	1	61069157	A/G	0.4968	0.5	0.375	0.125
chr1: 63123889	1	63123889	C/T	0.4876	0.5	0.375	0.125
chr1: 65202434	1	65202434	C/T	0.4764	0.499	0.374	0.124
chr1: 67249619	1	67249619	C/T	0.4944	0.5	0.375	0.125
chr1: 69353459	1	69353459	T/C	0.4944	0.5	0.375	0.125
chr1: 71116985	1	71116985	G/A	0.474	0.499	0.374	0.124
chr1: 73343620	1	73343620	T/C	0.4976	0.5	0.375	0.125
chr1: 75567962	1	75567962	C/T	0.3954	0.478	0.364	0.114
chr1: 77468186	1	77468186	C/T	0.5	0.5	0.375	0.125
chr1: 79185721	1	79185721	T/C	0.4828	0.5	0.375	0.125
chr1: 81072008	1	81072008	T/C	0.4117	0.485	0.367	0.117
chr1: 83093568	1	83093568	T/C	0.4976	0.5	0.375	0.125
chr1: 85247068	1	85247068	C/A	0.3674	0.465	0.357	0.108
chr1: 87604486	1	87604486	A/G	0.4976	0.5	0.375	0.125
BovineHD0100025718	1	90391338	T/G	0.4617	0.497	0.374	0.124
chr1: 92106250	1	92106250	C/T	0.4996	0.5	0.375	0.125
chr1: 94141904	1	94141904	T/C	0.4852	0.5	0.375	0.125
chr1: 96618535	1	96618535	A/T	0.4992	0.5	0.375	0.125
chr1: 98213895	1	98213895	G/A	0.4976	0.5	0.375	0.125
chr1: 102597974	1	102597974	A/T	0.4792	0.499	0.375	0.125
chr1: 104553440	1	104553440	C/A	0.5	0.5	0.375	0.125
chr1: 106360058	1	106360058	A/G	0.4948	0.5	0.375	0.125
chr1: 108109512	1	108109512	A/G	0.5	0.5	0.375	0.125
chr1: 111219204	1	111219204	G/T	0.4968	0.5	0.375	0.125
chr1: 113316161	1	113316161	A/G	0.4996	0.5	0.375	0.125
chr1: 115307210	1	115307210	C/T	0.4996	0.5	0.375	0.125
chr1: 117232512	1	117232512	G/A	0.4988	0.5	0.375	0.125
chr1: 119142301	1	119142301	A/G	0.4996	0.5	0.375	0.125
chr1: 121619169	1	121619169	C/G	0.498	0.5	0.375	0.125
chr1: 123306221	1	123306221	T/C	0.4569	0.496	0.373	0.123
chr1: 125963762	1	125963762	T/C	0.4992	0.5	0.375	0.125
chr1: 127473224	1	127473224	C/T	0.3774	0.47	0.36	0.11
chr1: 129312196	1	129312196	T/C	0.4872	0.5	0.375	0.125
chr1: 131338591	1	131338591	C/T	0.4936	0.5	0.375	0.125
chr1: 133231492	1	133231492	C/T	0.4613	0.497	0.373	0.124
chr1: 135638938	1	135638938	G/A	0.4984	0.5	0.375	0.125
chr1: 137647060	1	137647060	G/T	0.4976	0.5	0.375	0.125
chr1: 139172793	1	139172793	T/G	0.4956	0.5	0.375	0.125
chr1: 141796859	1	141796859	C/G	0.4537	0.496	0.373	0.123
BovineHD0100041816	1	144840991	G/A	0.4988	0.5	0.375	0.125
chr1: 147365032	1	147365032	A/G	0.492	0.5	0.375	0.125
chr1: 149696295	1	149696295	G/T	0.4768	0.499	0.374	0.124
chr1: 151931941	1	151931941	C/T	0.4968	0.5	0.375	0.125
chr1: 153033656	1	153033656	C/T	0.4868	0.5	0.375	0.125
chr1: 157013585	1	157013585	A/G	0.494	0.5	0.375	0.125
chr2: 2292914	2	2292914	C/T	0.498	0.5	0.375	0.125
chr2: 3201445	2	3201445	T/G	0.4481	0.495	0.372	0.122
chr2: 6547325	2	6547325	C/G	0.4924	0.5	0.375	0.125
BovineHD0200002751	2	9691620	C/T	0.4629	0.497	0.374	0.124
chr2: 10515607	2	10515607	G/A	0.4984	0.5	0.375	0.125
BovineHD0200003077	2	11166355	T/G	0.4812	0.499	0.375	0.125
chr2: 12469133	2	12469133	A/G	0.4924	0.5	0.375	0.125
chr2: 14337459	2	14337459	C/A	0.4988	0.5	0.375	0.125
chr2: 16361378	2	16361378	T/C	0.4752	0.499	0.374	0.124
chr2: 18736141	2	18736141	G/A	0.4832	0.5	0.375	0.125
chr2: 20899037	2	20899037	G/A	0.4956	0.5	0.375	0.125
chr2: 23048877	2	23048877	A/C	0.4992	0.5	0.375	0.125
chr2: 25766917	2	25766917	A/G	0.4069	0.483	0.366	0.116
chr2: 27704806	2	27704806	C/A	0.4896	0.5	0.375	0.125
chr2: 29923519	2	29923519	C/A	0.4653	0.498	0.374	0.124
chr2: 31692834	2	31692834	T/G	0.4992	0.5	0.375	0.125
chr2: 33882604	2	33882604	G/A	0.4153	0.486	0.368	0.118
chr2: 35706579	2	35706579	C/G	0.4884	0.5	0.375	0.125
chr2: 38317092	2	38317092	G/A	0.494	0.5	0.375	0.125
chr2: 40402873	2	40402873	G/A	0.4988	0.5	0.375	0.125
chr2: 42785850	2	42785850	A/C	0.4832	0.5	0.375	0.125
chr2: 45298638	2	45298638	T/C	0.4952	0.5	0.375	0.125
chr2: 47490334	2	47490334	C/G	0.4924	0.5	0.375	0.125
chr2: 50246865	2	50246865	A/T	0.4996	0.5	0.375	0.125
chr2: 53125067	2	53125067	T/G	0.4704	0.498	0.374	0.124
chr2: 55611799	2	55611799	A/T	0.4972	0.5	0.375	0.125
chr2: 57700577	2	57700577	A/C	0.4904	0.5	0.375	0.125
BovineHD0200018019	2	62411616	C/T	0.4964	0.5	0.375	0.125
chr2: 63275266	2	63275266	T/A	0.4988	0.5	0.375	0.125
BovineHD0200018552	2	64242565	A/G	0.478	0.499	0.375	0.125
chr2: 68158765	2	68158765	G/C	0.4912	0.5	0.375	0.125
chr2: 70740356	2	70740356	C/G	0.4984	0.5	0.375	0.125
chr2: 73566014	2	73566014	T/C	0.4421	0.493	0.372	0.122
chr2: 75948236	2	75948236	G/A	0.4968	0.5	0.375	0.125
BovineHD0200022742	2	79151817	G/A	0.4996	0.5	0.375	0.125
chr2: 81673931	2	81673931	G/A	0.3966	0.479	0.364	0.115
chr2: 83323019	2	83323019	T/C	0.4421	0.493	0.372	0.122
chr2: 86824344	2	86824344	G/A	0.4964	0.5	0.375	0.125
chr2: 89335404	2	89335404	T/C	0.5	0.5	0.375	0.125
chr2: 91648591	2	91648591	G/A	0.498	0.5	0.375	0.125
BovineHD0200027563	2	95935954	T/C	0.498	0.5	0.375	0.125
chr2: 97928774	2	97928774	T/C	0.4928	0.5	0.375	0.125
chr2: 99749502	2	99749502	C/T	0.4261	0.489	0.369	0.12
chr2: 102483918	2	102483918	C/G	0.4022	0.481	0.365	0.116
BovineHD0200030211	2	105005873	C/T	0.4844	0.5	0.375	0.125
chr2: 107473778	2	107473778	G/A	0.4724	0.499	0.374	0.124
chr2: 109312516	2	109312516	T/C	0.4936	0.5	0.375	0.125
chr2: 111984199	2	111984199	A/G	0.4844	0.5	0.375	0.125
chr2: 114011690	2	114011690	T/G	0.4996	0.5	0.375	0.125
chr2: 116006681	2	116006681	C/G	0.4896	0.5	0.375	0.125
chr2: 118519219	2	118519219	C/T	0.3522	0.457	0.352	0.104
chr2: 121231584	2	121231584	C/G	0.4453	0.494	0.372	0.122
chr2: 123977838	2	123977838	A/G	0.4784	0.499	0.375	0.125
chr2: 125154883	2	125154883	T/C	0.4972	0.5	0.375	0.125
chr2: 127550880	2	127550880	C/T	0.4157	0.486	0.368	0.118
chr2: 129689230	2	129689230	C/A	0.4992	0.5	0.375	0.125
chr2: 131912580	2	131912580	G/A	0.5	0.5	0.375	0.125
chr2: 133126495	2	133126495	A/G	0.4844	0.5	0.375	0.125
chr2: 135007150	2	135007150	A/C	0.47	0.498	0.374	0.124
chr2: 136693511	2	136693511	A/T	0.4988	0.5	0.375	0.125
BovineHD0300000204	3	922000	A/C	0.4892	0.5	0.375	0.125
BovineHD0300000351	3	1296645	T/C	0.4996	0.5	0.375	0.125
BovineHD0300000547	3	2038037	C/T	0.4796	0.499	0.375	0.125
chr3: 2972559	3	2972559	G/A	0.4856	0.5	0.375	0.125
chr3: 4609284	3	4609284	T/A	0.4205	0.488	0.369	0.119
chr3: 6714473	3	6714473	G/A	0.4241	0.489	0.369	0.119
chr3: 8163083	3	8163083	C/A	0.4988	0.5	0.375	0.125
chr3: 10889683	3	10889683	T/C	0.4996	0.5	0.375	0.125
chr3: 12700815	3	12700815	T/G	0.4992	0.5	0.375	0.125
chr3: 14888178	3	14888178	A/T	0.4685	0.498	0.374	0.124
chr3: 16774367	3	16774367	C/G	0.4988	0.5	0.375	0.125
chr3: 18214907	3	18214907	G/A	0.4856	0.5	0.375	0.125
chr3: 20227589	3	20227589	A/T	0.4956	0.5	0.375	0.125
chr3: 22888010	3	22888010	T/C	0.4908	0.5	0.375	0.125
chr3: 24121607	3	24121607	G/A	0.4916	0.5	0.375	0.125
chr3: 26062421	3	26062421	A/C	0.5	0.5	0.375	0.125
chr3: 28243923	3	28243923	T/A	0.4988	0.5	0.375	0.125
chr3: 31210779	3	31210779	C/T	0.4996	0.5	0.375	0.125
chr3: 33410492	3	33410492	A/C	0.4976	0.5	0.375	0.125
chr3: 35703444	3	35703444	A/C	0.4912	0.5	0.375	0.125
chr3: 37862314	3	37862314	T/C	0.4848	0.5	0.375	0.125
chr3: 40047483	3	40047483	C/A	0.4976	0.5	0.375	0.125
chr3: 42347013	3	42347013	A/G	0.4992	0.5	0.375	0.125
chr3: 46141906	3	46141906	T/C	0.49	0.5	0.375	0.125
chr3: 48531987	3	48531987	C/T	0.4888	0.5	0.375	0.125
chr3: 50087938	3	50087938	C/A	0.4908	0.5	0.375	0.125
chr3: 52363329	3	52363329	G/C	0.3558	0.459	0.353	0.105
chr3: 55465323	3	55465323	A/G	0.4896	0.5	0.375	0.125
chr3: 58278551	3	58278551	T/C	0.4948	0.5	0.375	0.125
chr3: 60872835	3	60872835	C/T	0.4932	0.5	0.375	0.125
chr3: 63972726	3	63972726	A/G	0.4776	0.499	0.374	0.125
chr3: 65931583	3	65931583	G/A	0.4984	0.5	0.375	0.125
chr3: 68033961	3	68033961	G/A	0.496	0.5	0.375	0.125
chr3: 71381417	3	71381417	T/C	0.4748	0.499	0.374	0.124
chr3: 73731721	3	73731721	T/C	0.4149	0.486	0.368	0.118
chr3: 75720895	3	75720895	T/A	0.492	0.5	0.375	0.125
chr3: 78450019	3	78450019	C/A	0.4936	0.5	0.375	0.125
chr3: 80270744	3	80270744	C/T	0.4377	0.492	0.371	0.121
chr3: 83162493	3	83162493	T/C	0.4992	0.5	0.375	0.125
chr3: 85988901	3	85988901	T/C	0.4892	0.5	0.375	0.125
chr3: 87656169	3	87656169	G/A	0.4976	0.5	0.375	0.125
chr3: 89847174	3	89847174	G/T	0.4984	0.5	0.375	0.125
chr3: 91558792	3	91558792	C/A	0.4968	0.5	0.375	0.125
chr3: 93499656	3	93499656	T/C	0.498	0.5	0.375	0.125
chr3: 95012162	3	95012162	A/T	0.498	0.5	0.375	0.125
chr3: 97148386	3	97148386	T/G	0.4984	0.5	0.375	0.125
chr3: 100912209	3	100912209	T/C	0.4281	0.49	0.37	0.12
chr3: 102515238	3	102515238	A/G	0.5	0.5	0.375	0.125
chr3: 104164934	3	104164934	C/T	0.4964	0.5	0.375	0.125
chr3: 106219168	3	106219168	G/C	0.4996	0.5	0.375	0.125
chr3: 108180618	3	108180618	G/C	0.4728	0.499	0.374	0.124
BovineHD4100002462	3	110010745	T/C	0.4976	0.5	0.375	0.125
chr3: 112430477	3	112430477	C/T	0.4992	0.5	0.375	0.125
chr3: 114619239	3	114619239	G/A	0.4916	0.5	0.375	0.125
chr3: 116452622	3	116452622	G/C	0.4824	0.5	0.375	0.125
chr3: 118148477	3	118148477	A/G	0.5	0.5	0.375	0.125
chr3: 119657526	3	119657526	C/T	0.4864	0.5	0.375	0.125
chr3: 121175246	3	121175246	T/C	0.4984	0.5	0.375	0.125
chr4: 3861427	4	3861427	T/C	0.4988	0.5	0.375	0.125
BovineHD4100002612	4	5478011	A/G	0.4924	0.5	0.375	0.125
BovineHD0400001913	4	6549577	A/G	0.472	0.499	0.374	0.124
BovineHD0400002141	4	7138504	T/C	0.498	0.5	0.375	0.125
chr4: 9021510	4	9021510	C/T	0.4461	0.494	0.372	0.122
chr4: 11577418	4	11577418	T/C	0.4904	0.5	0.375	0.125
chr4: 13098564	4	13098564	G/T	0.4956	0.5	0.375	0.125
chr4: 15359883	4	15359883	C/T	0.3806	0.472	0.36	0.111
chr4: 17779954	4	17779954	C/T	0.4992	0.5	0.375	0.125
chr4: 19078872	4	19078872	T/C	0.4992	0.5	0.375	0.125
chr4: 22645768	4	22645768	G/A	0.4976	0.5	0.375	0.125
chr4: 24307253	4	24307253	G/C	0.403	0.481	0.365	0.116
chr4: 26020550	4	26020550	G/C	0.4992	0.5	0.375	0.125
chr4: 28165801	4	28165801	T/G	0.4269	0.49	0.37	0.12
chr4: 30471896	4	30471896	C/A	0.4944	0.5	0.375	0.125
chr4: 32417299	4	32417299	C/A	0.4984	0.5	0.375	0.125
chr4: 35167308	4	35167308	G/T	0.4996	0.5	0.375	0.125
chr4: 37653081	4	37653081	C/T	0.4996	0.5	0.375	0.125
chr4: 41047723	4	41047723	G/A	0.4784	0.499	0.375	0.125
chr4: 44408279	4	44408279	C/A	0.4956	0.5	0.375	0.125
chr4: 48947495	4	48947495	C/A	0.4996	0.5	0.375	0.125
chr4: 51736700	4	51736700	T/C	0.4984	0.5	0.375	0.125
chr4: 53557315	4	53557315	G/A	0.4517	0.496	0.373	0.123
chr4: 56251739	4	56251739	A/T	0.4617	0.497	0.374	0.124
chr4: 59377877	4	59377877	T/A	0.498	0.5	0.375	0.125
chr4: 62116676	4	62116676	T/C	0.494	0.5	0.375	0.125
chr4: 64220533	4	64220533	A/G	0.4964	0.5	0.375	0.125
chr4: 66072087	4	66072087	C/T	0.4429	0.494	0.372	0.122
chr4: 68072014	4	68072014	A/C	0.4764	0.499	0.374	0.124
chr4: 70958591	4	70958591	G/T	0.4461	0.494	0.372	0.122
chr4: 72419909	4	72419909	A/G	0.4972	0.5	0.375	0.125
chr4: 74319680	4	74319680	C/T	0.4856	0.5	0.375	0.125
chr4: 76069001	4	76069001	G/A	0.4932	0.5	0.375	0.125
chr4: 78733527	4	78733527	A/G	0.4996	0.5	0.375	0.125
chr4: 80412321	4	80412321	G/A	0.4876	0.5	0.375	0.125
chr4: 82284742	4	82284742	C/T	0.4557	0.496	0.373	0.123
chr4: 84205752	4	84205752	G/C	0.4613	0.497	0.373	0.124
chr4: 86290264	4	86290264	G/A	0.4936	0.5	0.375	0.125
chr4: 88179396	4	88179396	G/A	0.4984	0.5	0.375	0.125
chr4: 90103827	4	90103827	A/G	0.4936	0.5	0.375	0.125
chr4: 92469122	4	92469122	G/T	0.4996	0.5	0.375	0.125
chr4: 94734183	4	94734183	A/C	0.4213	0.488	0.369	0.119
chr4: 96100801	4	96100801	T/C	0.4984	0.5	0.375	0.125
chr4: 98539972	4	98539972	G/C	0.4984	0.5	0.375	0.125
chr4: 100397123	4	100397123	C/G	0.4964	0.5	0.375	0.125
chr4: 102560075	4	102560075	G/T	0.4956	0.5	0.375	0.125
chr4: 104245564	4	104245564	G/A	0.4924	0.5	0.375	0.125
chr4: 106099249	4	106099249	A/T	0.494	0.5	0.375	0.125
chr4: 108302747	4	108302747	G/C	0.4996	0.5	0.375	0.125
chr4: 110365140	4	110365140	G/A	0.4988	0.5	0.375	0.125
chr4: 112014359	4	112014359	T/C	0.5	0.5	0.375	0.125
chr4: 114636283	4	114636283	C/T	0.4844	0.5	0.375	0.125
chr4: 116226917	4	116226917	C/T	0.4988	0.5	0.375	0.125
chr4: 119239489	4	119239489	T/A	0.4996	0.5	0.375	0.125
BovineHD0500000007	5	31485	C/T	0.4637	0.498	0.374	0.124
BovineHD0500000460	5	1797290	G/T	0.4992	0.5	0.375	0.125
chr5: 2610987	5	2610987	G/T	0.49	0.5	0.375	0.125
BovineHD0500000773	5	3012267	A/G	0.49	0.5	0.375	0.125
chr5: 5068243	5	5068243	G/C	0.4928	0.5	0.375	0.125
chr5: 6425820	5	6425820	T/C	0.4848	0.5	0.375	0.125
chr5: 8523790	5	8523790	A/C	0.4728	0.499	0.374	0.124
chr5: 9903460	5	9903460	A/G	0.482	0.5	0.375	0.125
chr5: 11064016	5	11064016	A/G	0.4976	0.5	0.375	0.125
chr5: 13468378	5	13468378	T/C	0.4968	0.5	0.375	0.125
chr5: 15650751	5	15650751	G/A	0.5	0.5	0.375	0.125
chr5: 17031046	5	17031046	G/T	0.4868	0.5	0.375	0.125
chr5: 19601695	5	19601695	G/A	0.4665	0.498	0.374	0.124
chr5: 22283765	5	22283765	A/C	0.4952	0.5	0.375	0.125
chr5: 25309909	5	25309909	T/G	0.4884	0.5	0.375	0.125
chr5: 27998047	5	27998047	T/G	0.4613	0.497	0.373	0.124
chr5: 29249825	5	29249825	C/T	0.498	0.5	0.375	0.125
chr5: 32734860	5	32734860	G/A	0.395	0.478	0.364	0.114
chr5: 34934298	5	34934298	G/A	0.4824	0.5	0.375	0.125
chr5: 36100135	5	36100135	A/G	0.4984	0.5	0.375	0.125
chr5: 38860266	5	38860266	C/T	0.4952	0.5	0.375	0.125
chr5: 40539755	5	40539755	C/T	0.4992	0.5	0.375	0.125
chr5: 42546535	5	42546535	C/A	0.5	0.5	0.375	0.125
chr5: 45596322	5	45596322	T/C	0.4756	0.499	0.374	0.124
chr5: 48383398	5	48383398	T/A	0.4984	0.5	0.375	0.125
chr5: 50356341	5	50356341	C/T	0.4992	0.5	0.375	0.125
chr5: 52837788	5	52837788	A/G	0.4984	0.5	0.375	0.125
chr5: 55094769	5	55094769	C/A	0.4996	0.5	0.375	0.125
chr5: 57563283	5	57563283	C/T	0.4992	0.5	0.375	0.125
chr5: 61938027	5	61938027	T/C	0.4988	0.5	0.375	0.125
chr5: 63674646	5	63674646	T/C	0.5	0.5	0.375	0.125
chr5: 65117330	5	65117330	T/A	0.5	0.5	0.375	0.125
chr5: 69355384	5	69355384	C/A	0.498	0.5	0.375	0.125
chr5: 71878536	5	71878536	G/A	0.5	0.5	0.375	0.125
chr5: 74763956	5	74763956	C/T	0.4972	0.5	0.375	0.125
chr5: 75632140	5	75632140	C/T	0.4916	0.5	0.375	0.125
chr5: 78472118	5	78472118	C/T	0.4736	0.499	0.374	0.124
chr5: 80990355	5	80990355	G/A	0.4996	0.5	0.375	0.125
BovineHD0500023615	5	83434257	T/C	0.496	0.5	0.375	0.125
chr5: 85549231	5	85549231	G/A	0.403	0.481	0.365	0.116
chr5: 87397204	5	87397204	G/C	0.4864	0.5	0.375	0.125
chr5: 90018451	5	90018451	G/C	0.4944	0.5	0.375	0.125
chr5: 92365101	5	92365101	C/T	0.4673	0.498	0.374	0.124
chr5: 94219588	5	94219588	T/C	0.4948	0.5	0.375	0.125
chr5: 96207260	5	96207260	T/C	0.4984	0.5	0.375	0.125
chr5: 98156010	5	98156010	T/C	0.4996	0.5	0.375	0.125
chr5: 100451709	5	100451709	G/A	0.5	0.5	0.375	0.125
chr5: 103778185	5	103778185	C/A	0.4952	0.5	0.375	0.125
BovineHD0500030582	5	106568560	T/C	0.472	0.499	0.374	0.124
chr5: 108509149	5	108509149	G/A	0.4621	0.497	0.374	0.124
chr5: 110026273	5	110026273	A/G	0.492	0.5	0.375	0.125
chr5: 112310553	5	112310553	C/T	0.4784	0.499	0.375	0.125
chr5: 114677995	5	114677995	A/G	0.496	0.5	0.375	0.125
chr5: 116585246	5	116585246	G/A	0.4736	0.499	0.374	0.124
chr5: 118068937	5	118068937	G/A	0.4996	0.5	0.375	0.125
chr5: 120597412	5	120597412	A/G	0.4669	0.498	0.374	0.124
BovineHD0600000946	6	3641139	A/G	0.4976	0.5	0.375	0.125
BovineHD0600000994	6	3807975	G/A	0.4996	0.5	0.375	0.125
BovineHD0600001372	6	5230318	G/A	0.3502	0.455	0.352	0.104
BovineHD0600001622	6	7436488	A/G	0.4864	0.5	0.375	0.125
chr6: 8715560	6	8715560	T/C	0.4453	0.494	0.372	0.122
chr6: 10275743	6	10275743	T/A	0.486	0.5	0.375	0.125
chr6: 12025526	6	12025526	C/A	0.4996	0.5	0.375	0.125
chr6: 13851956	6	13851956	T/C	0.4932	0.5	0.375	0.125
chr6: 15923688	6	15923688	T/G	0.4968	0.5	0.375	0.125
chr6: 18191288	6	18191288	A/G	0.4944	0.5	0.375	0.125
chr6: 20029937	6	20029937	T/G	0.49	0.5	0.375	0.125
chr6: 22018522	6	22018522	T/G	0.4964	0.5	0.375	0.125
chr6: 24308611	6	24308611	T/C	0.4389	0.493	0.371	0.121
chr6: 25955274	6	25955274	G/A	0.4868	0.5	0.375	0.125
chr6: 27127135	6	27127135	G/A	0.4984	0.5	0.375	0.125
chr6: 30344055	6	30344055	C/T	0.4868	0.5	0.375	0.125
chr6: 32995850	6	32995850	T/C	0.4988	0.5	0.375	0.125
chr6: 36295718	6	36295718	G/T	0.4776	0.499	0.374	0.125
chr6: 39465845	6	39465845	T/C	0.498	0.5	0.375	0.125
chr6: 42163850	6	42163850	G/A	0.5	0.5	0.375	0.125
chr6: 45430248	6	45430248	A/G	0.4948	0.5	0.375	0.125
chr6: 48405707	6	48405707	T/A	0.4273	0.49	0.37	0.12
chr6: 50368143	6	50368143	T/A	0.4904	0.5	0.375	0.125
chr6: 52091508	6	52091508	C/G	0.4892	0.5	0.375	0.125
chr6: 54763160	6	54763160	C/G	0.4996	0.5	0.375	0.125
chr6: 56962144	6	56962144	T/C	0.4968	0.5	0.375	0.125
chr6: 58716750	6	58716750	T/C	0.4948	0.5	0.375	0.125
chr6: 60131226	6	60131226	G/A	0.496	0.5	0.375	0.125
chr6: 62381859	6	62381859	T/C	0.4996	0.5	0.375	0.125
chr6: 65818645	6	65818645	A/G	0.4996	0.5	0.375	0.125
chr6: 68556443	6	68556443	T/C	0.4984	0.5	0.375	0.125
chr6: 72859610	6	72859610	A/G	0.4972	0.5	0.375	0.125
chr6: 75090494	6	75090494	T/C	0.5	0.5	0.375	0.125
chr6: 87995541	6	87995541	G/T	0.4956	0.5	0.375	0.125
chr6: 97061781	6	97061781	G/A	0.4692	0.498	0.374	0.124
chr6: 108816557	6	108816557	C/T	0.4792	0.499	0.375	0.125
chr6: 117500189	6	117500189	T/C	0.4645	0.498	0.374	0.124
chr7: 323290	7	323290	G/A	0.4437	0.494	0.372	0.122
chr7: 2636459	7	2636459	T/C	0.5	0.5	0.375	0.125
BovineHD0700000816	7	2920267	A/G	0.4992	0.5	0.375	0.125
BovineHD0700000906	7	3330103	T/C	0.4796	0.499	0.375	0.125
chr7: 5497295	7	5497295	C/T	0.4996	0.5	0.375	0.125
chr7: 7969340	7	7969340	G/T	0.4956	0.5	0.375	0.125
chr7: 10003983	7	10003983	T/C	0.4992	0.5	0.375	0.125
chr7: 13202771	7	13202771	A/G	0.4984	0.5	0.375	0.125
chr7: 16922116	7	16922116	T/C	0.4992	0.5	0.375	0.125
chr7: 18729157	7	18729157	G/A	0.4657	0.498	0.374	0.124
chr7: 20314935	7	20314935	T/C	0.4988	0.5	0.375	0.125
chr7: 22363112	7	22363112	C/T	0.4437	0.494	0.372	0.122
chr7: 24361453	7	24361453	C/T	0.4956	0.5	0.375	0.125
BovineHD0700007619	7	27360142	G/A	0.4952	0.5	0.375	0.125
chr7: 29102061	7	29102061	A/G	0.5	0.5	0.375	0.125
chr7: 31395937	7	31395937	G/A	0.4992	0.5	0.375	0.125
chr7: 33488283	7	33488283	T/C	0.4984	0.5	0.375	0.125
chr7: 35127491	7	35127491	T/C	0.4996	0.5	0.375	0.125
chr7: 37079045	7	37079045	T/G	0.4988	0.5	0.375	0.125
BovineHD0700011845	7	40874649	A/G	0.4876	0.5	0.375	0.125
chr7: 42921853	7	42921853	T/C	0.4593	0.497	0.373	0.123
chr7: 46690297	7	46690297	G/A	0.4844	0.5	0.375	0.125
chr7: 48884947	7	48884947	A/C	0.4972	0.5	0.375	0.125
chr7: 50250949	7	50250949	G/A	0.4948	0.5	0.375	0.125
chr7: 53296158	7	53296158	G/A	0.498	0.5	0.375	0.125
chr7: 55798969	7	55798969	C/A	0.4988	0.5	0.375	0.125
chr7: 58187926	7	58187926	C/T	0.4956	0.5	0.375	0.125
chr7: 61088591	7	61088591	T/A	0.4712	0.499	0.374	0.124
chr7: 65393898	7	65393898	C/G	0.494	0.5	0.375	0.125
chr7: 67286820	7	67286820	C/G	0.4844	0.5	0.375	0.125
chr7: 69280676	7	69280676	G/A	0.4972	0.5	0.375	0.125
chr7: 71538319	7	71538319	G/A	0.4972	0.5	0.375	0.125
chr7: 73794744	7	73794744	T/C	0.498	0.5	0.375	0.125
chr7: 75140866	7	75140866	G/C	0.4992	0.5	0.375	0.125
chr7: 77176754	7	77176754	C/T	0.4824	0.5	0.375	0.125
chr7: 79798840	7	79798840	C/G	0.4848	0.5	0.375	0.125
BovineHD0700023890	7	82015442	A/C	0.4988	0.5	0.375	0.125
chr7: 94484358	7	94484358	G/A	0.4888	0.5	0.375	0.125
chr7: 103520087	7	103520087	C/T	0.4964	0.5	0.375	0.125
chr7: 109212612	7	109212612	A/C	0.5	0.5	0.375	0.125
chr8: 52977	8	52977	C/T	0.4996	0.5	0.375	0.125
ARS-USMARC-Parent-	8	1554706	G/A	0.4964	0.5	0.375	0.125
DQ916058-rs29016146
Hapmap46330-BTA-95948	8	3533444	T/A	0.4964	0.5	0.375	0.125
UA-IFASA-5111	8	3922416	A/G	0.4868	0.5	0.375	0.125
chr8: 6024854	8	6024854	A/G	0.4944	0.5	0.375	0.125
chr8: 9054284	8	9054284	A/T	0.3834	0.473	0.361	0.112
chr8: 11592103	8	11592103	G/A	0.4916	0.5	0.375	0.125
chr8: 13246773	8	13246773	T/G	0.4964	0.5	0.375	0.125
chr8: 15507208	8	15507208	G/T	0.4996	0.5	0.375	0.125
chr8: 17122844	8	17122844	A/G	0.4988	0.5	0.375	0.125
chr8: 19494843	8	19494843	A/T	0.4856	0.5	0.375	0.125
chr8: 21255732	8	21255732	A/G	0.4984	0.5	0.375	0.125
chr8: 24452617	8	24452617	A/T	0.4912	0.5	0.375	0.125
BovineHD0800007910	8	26150623	A/G	0.4776	0.499	0.374	0.125
chr8: 29128317	8	29128317	T/A	0.4964	0.5	0.375	0.125
chr8: 31213020	8	31213020	C/G	0.4976	0.5	0.375	0.125
chr8: 32901857	8	32901857	A/G	0.4968	0.5	0.375	0.125
chr8: 34910132	8	34910132	T/C	0.4992	0.5	0.375	0.125
chr8: 37544170	8	37544170	G/C	0.4992	0.5	0.375	0.125
chr8: 39903026	8	39903026	T/A	0.3966	0.479	0.364	0.115
chr8: 41771334	8	41771334	A/G	0.4996	0.5	0.375	0.125
chr8: 42954715	8	42954715	C/G	0.4984	0.5	0.375	0.125
chr8: 45323917	8	45323917	A/T	0.4984	0.5	0.375	0.125
chr8: 47935064	8	47935064	A/G	0.4828	0.5	0.375	0.125
chr8: 50505013	8	50505013	A/G	0.4992	0.5	0.375	0.125
chr8: 52181043	8	52181043	A/T	0.4876	0.5	0.375	0.125
chr8: 54046042	8	54046042	C/G	0.4968	0.5	0.375	0.125
chr8: 56303275	8	56303275	C/T	0.4988	0.5	0.375	0.125
chr8: 58472144	8	58472144	T/C	0.4736	0.499	0.374	0.124
chr8: 60302978	8	60302978	C/A	0.4848	0.5	0.375	0.125
BovineHD0800018780	8	62878834	A/G	0.4996	0.5	0.375	0.125
chr8: 64364896	8	64364896	A/G	0.4924	0.5	0.375	0.125
chr8: 66116974	8	66116974	A/G	0.4916	0.5	0.375	0.125
chr8: 68298246	8	68298246	G/A	0.4864	0.5	0.375	0.125
chr8: 70059755	8	70059755	C/T	0.4824	0.5	0.375	0.125
chr8: 72761382	8	72761382	C/A	0.4988	0.5	0.375	0.125
chr8: 74068851	8	74068851	A/G	0.4984	0.5	0.375	0.125
chr8: 77187323	8	77187323	C/T	0.4916	0.5	0.375	0.125
chr8: 79249577	8	79249577	A/T	0.4952	0.5	0.375	0.125
chr8: 81936011	8	81936011	C/T	0.4976	0.5	0.375	0.125
chr8: 84900873	8	84900873	C/T	0.496	0.5	0.375	0.125
BovineHD0800026578	8	89625431	C/T	0.498	0.5	0.375	0.125
chr8: 91908606	8	91908606	G/T	0.4888	0.5	0.375	0.125
BovineHD0800028888	8	97833606	C/T	0.4952	0.5	0.375	0.125
chr8: 106296663	8	106296663	G/A	0.4996	0.5	0.375	0.125
chr9: 118327	9	118327	A/T	0.486	0.5	0.375	0.125
chr9: 4553903	9	4553903	T/C	0.494	0.5	0.375	0.125
BovineHD0900001546	9	7173058	C/A	0.4992	0.5	0.375	0.125
BovineHD0900002201	9	9060667	A/C	0.4996	0.5	0.375	0.125
BovineHD0900002717	9	10949242	A/G	0.4968	0.5	0.375	0.125
chr9: 11988685	9	11988685	A/G	0.4964	0.5	0.375	0.125
chr9: 14102277	9	14102277	C/A	0.4645	0.498	0.374	0.124
chr9: 16050438	9	16050438	T/C	0.4976	0.5	0.375	0.125
chr9: 18927655	9	18927655	T/C	0.4968	0.5	0.375	0.125
chr9: 20941076	9	20941076	T/C	0.4896	0.5	0.375	0.125
chr9: 23183945	9	23183945	T/G	0.4876	0.5	0.375	0.125
chr9: 25342529	9	25342529	G/T	0.4916	0.5	0.375	0.125
chr9: 27435788	9	27435788	T/C	0.4073	0.483	0.366	0.117
chr9: 29224171	9	29224171	T/C	0.4992	0.5	0.375	0.125
chr9: 31886588	9	31886588	G/A	0.4948	0.5	0.375	0.125
chr9: 33212985	9	33212985	T/C	0.4996	0.5	0.375	0.125
chr9: 35436418	9	35436418	C/T	0.4844	0.5	0.375	0.125
chr9: 37363016	9	37363016	G/C	0.4996	0.5	0.375	0.125
chr9: 39057580	9	39057580	G/A	0.4569	0.496	0.373	0.123
chr9: 41758586	9	41758586	A/C	0.4972	0.5	0.375	0.125
chr9: 43377583	9	43377583	C/T	0.4561	0.496	0.373	0.123
chr9: 44837991	9	44837991	A/G	0.4996	0.5	0.375	0.125
chr9: 47413940	9	47413940	C/T	0.4477	0.495	0.372	0.122
chr9: 49420887	9	49420887	C/A	0.48	0.499	0.375	0.125
chr9: 51267024	9	51267024	T/C	0.4948	0.5	0.375	0.125
chr9: 53379758	9	53379758	G/T	0.4952	0.5	0.375	0.125
chr9: 55422398	9	55422398	C/T	0.4796	0.499	0.375	0.125
chr9: 57258001	9	57258001	G/A	0.4988	0.5	0.375	0.125
chr9: 59236293	9	59236293	C/T	0.4876	0.5	0.375	0.125
chr9: 62650382	9	62650382	C/G	0.4872	0.5	0.375	0.125
chr9: 64191131	9	64191131	A/G	0.478	0.499	0.375	0.125
chr9: 66373455	9	66373455	A/C	0.4952	0.5	0.375	0.125
chr9: 68330426	9	68330426	A/C	0.5	0.5	0.375	0.125
chr9: 70113064	9	70113064	C/A	0.4868	0.5	0.375	0.125
chr9: 72948740	9	72948740	A/G	0.4892	0.5	0.375	0.125
chr9: 74910536	9	74910536	C/T	0.5	0.5	0.375	0.125
chr9: 77198935	9	77198935	A/C	0.4976	0.5	0.375	0.125
chr9: 79682260	9	79682260	A/G	0.4996	0.5	0.375	0.125
chr9: 81526163	9	81526163	C/T	0.4912	0.5	0.375	0.125
chr9: 100656748	9	100656748	A/G	0.4289	0.49	0.37	0.12
chr10: 556085	10	556085	T/A	0.4956	0.5	0.375	0.125
chr10: 1730897	10	1730897	A/T	0.4748	0.499	0.374	0.124
ARS-BFGL-NGS-61586	10	6413192	A/G	0.4956	0.5	0.375	0.125
BovineHD1000002399	10	7472054	A/G	0.4988	0.5	0.375	0.125
chr10: 9153211	10	9153211	T/G	0.4968	0.5	0.375	0.125
BovineHD1000004574	10	13579099	C/T	0.4445	0.494	0.372	0.122
chr10: 15227385	10	15227385	C/G	0.4988	0.5	0.375	0.125
chr10: 17193397	10	17193397	G/C	0.4529	0.496	0.373	0.123
chr10: 19427128	10	19427128	C/T	0.4669	0.498	0.374	0.124
chr10: 21078628	10	21078628	C/T	0.4928	0.5	0.375	0.125
chr10: 23361431	10	23361431	C/T	0.49	0.5	0.375	0.125
chr10: 26456276	10	26456276	G/A	0.4996	0.5	0.375	0.125
chr10: 28994288	10	28994288	C/G	0.4996	0.5	0.375	0.125
chr10: 30582027	10	30582027	C/T	0.4848	0.5	0.375	0.125
chr10: 32552401	10	32552401	C/T	0.3966	0.479	0.364	0.115
chr10: 34431386	10	34431386	T/A	0.4944	0.5	0.375	0.125
BovineHD1000011551	10	37319439	A/C	0.4968	0.5	0.375	0.125
chr10: 39588228	10	39588228	A/G	0.4804	0.499	0.375	0.125
chr10: 41213432	10	41213432	G/A	0.4948	0.5	0.375	0.125
chr10: 43406860	10	43406860	A/C	0.4085	0.483	0.366	0.117
BovineHD1000013921	10	46503089	A/G	0.4976	0.5	0.375	0.125
chr10: 48504197	10	48504197	G/C	0.47	0.498	0.374	0.124
chr10: 50125360	10	50125360	G/A	0.4988	0.5	0.375	0.125
chr10: 52159167	10	52159167	T/G	0.488	0.5	0.375	0.125
chr10: 54236151	10	54236151	C/T	0.4996	0.5	0.375	0.125
chr10: 56198215	10	56198215	C/T	0.4996	0.5	0.375	0.125
chr10: 58765458	10	58765458	C/T	0.4625	0.497	0.374	0.124
chr10: 61728710	10	61728710	T/A	0.4952	0.5	0.375	0.125
chr10: 63028632	10	63028632	A/G	0.4988	0.5	0.375	0.125
chr10: 66983606	10	66983606	A/G	0.4856	0.5	0.375	0.125
chr10: 70944177	10	70944177	C/G	0.4988	0.5	0.375	0.125
chr10: 73413069	10	73413069	T/C	0.4816	0.5	0.375	0.125
chr10: 76359926	10	76359926	G/C	0.4748	0.499	0.374	0.124
chr10: 78335635	10	78335635	A/G	0.4952	0.5	0.375	0.125
chr10: 80305425	10	80305425	C/A	0.4477	0.495	0.372	0.122
chr10: 82391519	10	82391519	A/G	0.4964	0.5	0.375	0.125
chr10: 84072952	10	84072952	G/A	0.4924	0.5	0.375	0.125
chr10: 86098247	10	86098247	T/C	0.4944	0.5	0.375	0.125
chr10: 88459679	10	88459679	G/A	0.3854	0.474	0.362	0.112
chr10: 90765222	10	90765222	A/C	0.492	0.5	0.375	0.125
chr10: 92017959	10	92017959	C/T	0.496	0.5	0.375	0.125
chr10: 94160653	10	94160653	C/T	0.4876	0.5	0.375	0.125
chr10: 96254810	10	96254810	G/A	0.4557	0.496	0.373	0.123
chr10: 98176366	10	98176366	C/G	0.4892	0.5	0.375	0.125
chr10: 102379025	10	102379025	G/A	0.4996	0.5	0.375	0.125
chr11: 1816232	11	1816232	C/A	0.4892	0.5	0.375	0.125
BovineHD1100002103	11	5778054	T/C	0.4864	0.5	0.375	0.125
chr11: 9449037	11	9449037	C/T	0.4984	0.5	0.375	0.125
chr11: 16181304	11	16181304	G/A	0.397	0.479	0.364	0.115
chr11: 18148960	11	18148960	T/C	0.4421	0.493	0.372	0.122
chr11: 20898079	11	20898079	G/A	0.4952	0.5	0.375	0.125
chr11: 23036171	11	23036171	C/T	0.5	0.5	0.375	0.125
BovineHD1100007798	11	26080039	C/T	0.4964	0.5	0.375	0.125
chr11: 28101895	11	28101895	G/T	0.4988	0.5	0.375	0.125
BovineHD1100009590	11	31928844	G/A	0.4948	0.5	0.375	0.125
chr11: 34101385	11	34101385	C/T	0.4677	0.498	0.374	0.124
chr11: 36285809	11	36285809	A/G	0.5	0.5	0.375	0.125
chr11: 39217910	11	39217910	C/T	0.4952	0.5	0.375	0.125
chr11: 42411510	11	42411510	T/C	0.498	0.5	0.375	0.125
chr11: 44850419	11	44850419	A/G	0.4944	0.5	0.375	0.125
BovineHD1100013977	11	47686080	G/T	0.5	0.5	0.375	0.125
chr11: 49991996	11	49991996	A/G	0.4976	0.5	0.375	0.125
chr11: 52270391	11	52270391	A/G	0.4996	0.5	0.375	0.125
chr11: 56101323	11	56101323	G/C	0.4952	0.5	0.375	0.125
chr11: 58578189	11	58578189	G/T	0.4653	0.498	0.374	0.124
chr11: 62962927	11	62962927	C/T	0.4888	0.5	0.375	0.125
chr11: 65495916	11	65495916	G/T	0.4984	0.5	0.375	0.125
chr11: 67558272	11	67558272	C/T	0.4996	0.5	0.375	0.125
chr11: 69888219	11	69888219	C/A	0.4952	0.5	0.375	0.125
chr11: 72119562	11	72119562	C/T	0.4844	0.5	0.375	0.125
chr11: 76815091	11	76815091	A/C	0.4904	0.5	0.375	0.125
chr11: 79430810	11	79430810	T/C	0.4573	0.497	0.373	0.123
BovineHD1100022903	11	79980970	T/C	0.4992	0.5	0.375	0.125
BovineHD1100023475	11	81959151	G/T	0.4976	0.5	0.375	0.125
chr11: 83237290	11	83237290	G/A	0.4808	0.499	0.375	0.125
chr11: 86007382	11	86007382	G/C	0.4856	0.5	0.375	0.125
chr11: 88141810	11	88141810	C/T	0.4728	0.499	0.374	0.124
BovineHD1100027008	11	92814391	T/C	0.5	0.5	0.375	0.125
chr11: 94211519	11	94211519	G/T	0.4988	0.5	0.375	0.125
chr11: 98432605	11	98432605	C/T	0.4964	0.5	0.375	0.125
chr11: 100052622	11	100052622	C/A	0.498	0.5	0.375	0.125
chr11: 103917923	11	103917923	G/C	0.4932	0.5	0.375	0.125
chr12: 1319700	12	1319700	A/G	0.4944	0.5	0.375	0.125
BovineHD1200001590	12	5423854	G/A	0.4884	0.5	0.375	0.125
chr12: 7456083	12	7456083	C/T	0.4968	0.5	0.375	0.125
chr12: 9274719	12	9274719	A/G	0.4916	0.5	0.375	0.125
chr12: 11817572	12	11817572	C/A	0.4996	0.5	0.375	0.125
chr12: 14528558	12	14528558	G/C	0.4928	0.5	0.375	0.125
chr12: 17152561	12	17152561	T/C	0.4852	0.5	0.375	0.125
chr12: 20418884	12	20418884	C/T	0.4988	0.5	0.375	0.125
chr12: 23652977	12	23652977	C/T	0.474	0.499	0.374	0.124
chr12: 24780202	12	24780202	T/C	0.4892	0.5	0.375	0.125
chr12: 26767294	12	26767294	T/G	0.4992	0.5	0.375	0.125
chr12: 29031933	12	29031933	C/T	0.4948	0.5	0.375	0.125
chr12: 31074209	12	31074209	C/A	0.482	0.5	0.375	0.125
chr12: 33937183	12	33937183	G/C	0.4637	0.498	0.374	0.124
chr12: 35685597	12	35685597	A/G	0.4968	0.5	0.375	0.125
chr12: 37689687	12	37689687	T/G	0.4944	0.5	0.375	0.125
chr12: 39546498	12	39546498	A/C	0.4944	0.5	0.375	0.125
chr12: 41364155	12	41364155	G/T	0.4984	0.5	0.375	0.125
chr12: 44447101	12	44447101	A/G	0.4856	0.5	0.375	0.125
chr12: 48802895	12	48802895	C/T	0.4932	0.5	0.375	0.125
chr12: 51164014	12	51164014	A/G	0.4988	0.5	0.375	0.125
chr12: 54348649	12	54348649	T/C	0.492	0.5	0.375	0.125
chr12: 70218372	12	70218372	T/C	0.3926	0.477	0.363	0.114
BovineHD1200022318	12	78387270	A/G	0.496	0.5	0.375	0.125
BTA-30932-no-rs	12	83614359	G/A	0.4685	0.498	0.374	0.124
chr12: 87182358	12	87182358	C/T	0.4944	0.5	0.375	0.125
chr13: 1517586	13	1517586	C/T	0.494	0.5	0.375	0.125
BovineHD1300001203	13	4630391	A/G	0.4936	0.5	0.375	0.125
chr13: 7362945	13	7362945	C/T	0.4796	0.499	0.375	0.125
chr13: 9892854	13	9892854	G/A	0.4629	0.497	0.374	0.124
chr13: 13843476	13	13843476	A/G	0.4932	0.5	0.375	0.125
chr13: 15318011	13	15318011	T/A	0.4756	0.499	0.374	0.124
chr13: 17297299	13	17297299	G/A	0.4433	0.494	0.372	0.122
chr13: 19474034	13	19474034	C/T	0.3878	0.475	0.362	0.113
chr13: 21291531	13	21291531	C/T	0.4972	0.5	0.375	0.125
chr13: 23450925	13	23450925	T/C	0.4924	0.5	0.375	0.125
BovineHD4100010034	13	26047739	A/C	0.4964	0.5	0.375	0.125
chr13: 28918149	13	28918149	C/G	0.4046	0.482	0.366	0.116
chr13: 30005237	13	30005237	C/T	0.4964	0.5	0.375	0.125
chr13: 32728171	13	32728171	T/C	0.4808	0.499	0.375	0.125
chr13: 36138561	13	36138561	G/A	0.4964	0.5	0.375	0.125
chr13: 39437219	13	39437219	G/A	0.4996	0.5	0.375	0.125
chr13: 41477551	13	41477551	A/G	0.4928	0.5	0.375	0.125
chr13: 44551336	13	44551336	C/G	0.494	0.5	0.375	0.125
BovineHD1300013764	13	46950685	C/T	0.4557	0.496	0.373	0.123
BTB-01125985	13	51118474	C/A	0.496	0.5	0.375	0.125
chr13: 58768742	13	58768742	G/A	0.492	0.5	0.375	0.125
BovineHD1300018739	13	65998236	A/G	0.4868	0.5	0.375	0.125
chr13: 70658985	13	70658985	T/C	0.4912	0.5	0.375	0.125
BovineHD1300024312	13	83560269	A/G	0.4984	0.5	0.375	0.125
chr14: 358943	14	358943	T/C	0.4605	0.497	0.373	0.123
chr14: 3080193	14	3080193	G/A	0.4928	0.5	0.375	0.125
chr14: 6491593	14	6491593	T/C	0.4545	0.496	0.373	0.123
Hapmap54453-rs29015999	14	10812434	C/T	0.4976	0.5	0.375	0.125
chr14: 12207325	14	12207325	C/T	0.4968	0.5	0.375	0.125
BovineHD1400004049	14	14029735	T/C	0.4876	0.5	0.375	0.125
BovineHD1400005023	14	17624295	G/A	0.496	0.5	0.375	0.125
chr14: 19580120	14	19580120	T/C	0.4992	0.5	0.375	0.125
chr14: 21343979	14	21343979	A/G	0.498	0.5	0.375	0.125
chr14: 23436581	14	23436581	G/A	0.498	0.5	0.375	0.125
chr14: 25897491	14	25897491	G/A	0.5	0.5	0.375	0.125
chr14: 27996180	14	27996180	C/A	0.4972	0.5	0.375	0.125
chr14: 29576356	14	29576356	T/A	0.4972	0.5	0.375	0.125
chr14: 31898098	14	31898098	T/C	0.4988	0.5	0.375	0.125
BovineHD1400010360	14	35973935	T/C	0.4573	0.497	0.373	0.123
chr14: 38491622	14	38491622	A/G	0.4992	0.5	0.375	0.125
chr14: 40835506	14	40835506	G/A	0.4828	0.5	0.375	0.125
chr14: 42946639	14	42946639	C/G	0.3806	0.472	0.36	0.111
chr14: 44071226	14	44071226	A/C	0.4976	0.5	0.375	0.125
chr14: 47444785	14	47444785	A/G	0.4996	0.5	0.375	0.125
chr14: 49311562	14	49311562	T/C	0.4984	0.5	0.375	0.125
chr14: 51783709	14	51783709	A/G	0.4824	0.5	0.375	0.125
BovineHD1400014971	14	53111814	C/T	0.488	0.5	0.375	0.125
BovineHD4100011609	14	56726986	C/T	0.4724	0.499	0.374	0.124
chr14: 58774396	14	58774396	A/T	0.4976	0.5	0.375	0.125
chr14: 61264006	14	61264006	C/T	0.4896	0.5	0.375	0.125
chr14: 63211114	14	63211114	A/T	0.4034	0.482	0.365	0.116
chr14: 65283781	14	65283781	G/A	0.4964	0.5	0.375	0.125
chr14: 68940797	14	68940797	C/T	0.5	0.5	0.375	0.125
chr14: 73268228	14	73268228	G/A	0.4984	0.5	0.375	0.125
BovineHD1400023889	14	84283231	T/C	0.4992	0.5	0.375	0.125
chr15: 705104	15	705104	A/G	0.4996	0.5	0.375	0.125
chr15: 1426673	15	1426673	A/G	0.486	0.5	0.375	0.125
chr15: 13966063	15	13966063	A/T	0.4968	0.5	0.375	0.125
chr15: 15353085	15	15353085	T/C	0.4976	0.5	0.375	0.125
chr15: 17863316	15	17863316	A/G	0.5	0.5	0.375	0.125
chr15: 20577613	15	20577613	T/G	0.4984	0.5	0.375	0.125
chr15: 22753967	15	22753967	G/A	0.4996	0.5	0.375	0.125
chr15: 24704857	15	24704857	A/C	0.4896	0.5	0.375	0.125
chr15: 26010177	15	26010177	C/T	0.4876	0.5	0.375	0.125
chr15: 28586304	15	28586304	C/G	0.4685	0.498	0.374	0.124
chr15: 31931965	15	31931965	T/C	0.4996	0.5	0.375	0.125
chr15: 33279400	15	33279400	T/A	0.4561	0.496	0.373	0.123
chr15: 34120648	15	34120648	T/G	0.488	0.5	0.375	0.125
chr15: 35353463	15	35353463	C/A	0.4988	0.5	0.375	0.125
chr15: 36631768	15	36631768	A/G	0.4996	0.5	0.375	0.125
chr15: 37936745	15	37936745	T/C	0.4988	0.5	0.375	0.125
chr15: 41112170	15	41112170	G/A	0.4852	0.5	0.375	0.125
chr15: 43478045	15	43478045	T/C	0.4896	0.5	0.375	0.125
chr15: 45153486	15	45153486	C/A	0.4952	0.5	0.375	0.125
chr15: 47802027	15	47802027	C/T	0.4856	0.5	0.375	0.125
chr15: 49090962	15	49090962	G/A	0.4972	0.5	0.375	0.125
chr15: 51607362	15	51607362	T/C	0.4972	0.5	0.375	0.125
chr15: 53006024	15	53006024	T/C	0.4936	0.5	0.375	0.125
BovineHD1500016013	15	55392541	G/A	0.4996	0.5	0.375	0.125
chr15: 58357732	15	58357732	A/G	0.4964	0.5	0.375	0.125
chr15: 61616402	15	61616402	C/T	0.4964	0.5	0.375	0.125
chr15: 64303035	15	64303035	A/C	0.4505	0.495	0.373	0.123
chr15: 67002416	15	67002416	T/C	0.4597	0.497	0.373	0.123
chr15: 70085418	15	70085418	G/A	0.4984	0.5	0.375	0.125
chr15: 72322212	15	72322212	C/T	0.4561	0.496	0.373	0.123
chr15: 75697490	15	75697490	A/G	0.4984	0.5	0.375	0.125
chr15: 79573827	15	79573827	T/A	0.4908	0.5	0.375	0.125
chr15: 82767382	15	82767382	C/T	0.4976	0.5	0.375	0.125
chr15: 84713024	15	84713024	G/A	0.49	0.5	0.375	0.125
chr16: 77616	16	77616	A/C	0.4852	0.5	0.375	0.125
ARS-BFGL-NGS-10856	16	1690484	C/T	0.4896	0.5	0.375	0.125
chr16: 3834931	16	3834931	A/G	0.4828	0.5	0.375	0.125
chr16: 5283226	16	5283226	G/A	0.4916	0.5	0.375	0.125
chr16: 7392772	16	7392772	C/G	0.4968	0.5	0.375	0.125
chr16: 9445946	16	9445946	T/C	0.4984	0.5	0.375	0.125
chr16: 11735482	16	11735482	G/C	0.4976	0.5	0.375	0.125
chr16: 12752913	16	12752913	C/T	0.4824	0.5	0.375	0.125
chr16: 14240346	16	14240346	C/T	0.4936	0.5	0.375	0.125
chr16: 15357072	16	15357072	A/G	0.4353	0.492	0.371	0.121
chr16: 18018781	16	18018781	T/C	0.4241	0.489	0.369	0.119
chr16: 19501245	16	19501245	C/T	0.4968	0.5	0.375	0.125
chr16: 21269494	16	21269494	G/A	0.4221	0.488	0.369	0.119
chr16: 23486555	16	23486555	G/T	0.4976	0.5	0.375	0.125
BovineHD1600008020	16	28632394	C/T	0.4996	0.5	0.375	0.125
chr16: 34333202	16	34333202	A/G	0.4844	0.5	0.375	0.125
chr16: 36817430	16	36817430	A/T	0.4968	0.5	0.375	0.125
chr16: 38789947	16	38789947	A/G	0.4996	0.5	0.375	0.125
chr16: 41098125	16	41098125	A/G	0.498	0.5	0.375	0.125
chr16: 44671987	16	44671987	G/A	0.4201	0.487	0.369	0.119
chr16: 46410126	16	46410126	C/T	0.498	0.5	0.375	0.125
chr16: 48803795	16	48803795	G/A	0.496	0.5	0.375	0.125
chr16: 50602909	16	50602909	A/G	0.5	0.5	0.375	0.125
BovineHD1600014931	16	53827496	C/T	0.3686	0.466	0.357	0.108
chr16: 55295999	16	55295999	G/A	0.4964	0.5	0.375	0.125
chr16: 57769675	16	57769675	A/G	0.4952	0.5	0.375	0.125
chr16: 59139262	16	59139262	G/T	0.4896	0.5	0.375	0.125
chr16: 61094760	16	61094760	C/A	0.4904	0.5	0.375	0.125
chr16: 63552899	16	63552899	G/A	0.4984	0.5	0.375	0.125
chr16: 65136800	16	65136800	A/G	0.4964	0.5	0.375	0.125
chr16: 67144941	16	67144941	C/T	0.4984	0.5	0.375	0.125
chr16: 69668766	16	69668766	T/C	0.4952	0.5	0.375	0.125
chr16: 71320729	16	71320729	G/A	0.4661	0.498	0.374	0.124
chr16: 73804367	16	73804367	G/T	0.492	0.5	0.375	0.125
chr16: 75591725	16	75591725	G/C	0.4932	0.5	0.375	0.125
chr16: 78837702	16	78837702	G/A	0.472	0.499	0.374	0.124
chr16: 80439174	16	80439174	C/T	0.4868	0.5	0.375	0.125
chr16: 81680738	16	81680738	G/A	0.3534	0.457	0.353	0.104
chr17: 3949	17	3949	A/G	0.365	0.464	0.356	0.107
BovineHD1700000599	17	2697332	C/T	0.4972	0.5	0.375	0.125
chr17: 4148744	17	4148744	G/C	0.4992	0.5	0.375	0.125
chr17: 6329595	17	6329595	C/T	0.4788	0.499	0.375	0.125
chr17: 9313408	17	9313408	C/T	0.4904	0.5	0.375	0.125
chr17: 13875510	17	13875510	T/C	0.4996	0.5	0.375	0.125
chr17: 15091533	17	15091533	A/G	0.494	0.5	0.375	0.125
chr17: 17047819	17	17047819	G/A	0.4253	0.489	0.369	0.119
chr17: 19422833	17	19422833	T/C	0.4996	0.5	0.375	0.125
chr17: 21001768	17	21001768	C/G	0.4996	0.5	0.375	0.125
chr17: 23725618	17	23725618	A/G	0.4984	0.5	0.375	0.125
chr17: 25823983	17	25823983	T/C	0.4992	0.5	0.375	0.125
chr17: 28268900	17	28268900	C/T	0.4996	0.5	0.375	0.125
chr17: 32282994	17	32282994	G/C	0.4904	0.5	0.375	0.125
chr17: 34678792	17	34678792	C/T	0.4964	0.5	0.375	0.125
chr17: 37147703	17	37147703	T/A	0.4888	0.5	0.375	0.125
chr17: 39057027	17	39057027	A/G	0.488	0.5	0.375	0.125
BovineHD1700013264	17	47362503	A/G	0.4996	0.5	0.375	0.125
chr17: 50542329	17	50542329	T/C	0.4992	0.5	0.375	0.125
chr17: 52756216	17	52756216	G/A	0.5	0.5	0.375	0.125
chr17: 57107543	17	57107543	G/T	0.4832	0.5	0.375	0.125
chr17: 60037087	17	60037087	C/A	0.4996	0.5	0.375	0.125
chr17: 62141105	17	62141105	T/A	0.4964	0.5	0.375	0.125
chr17: 72829287	17	72829287	T/C	0.4716	0.499	0.374	0.124
chr18: 1103982	18	1103982	G/A	0.4936	0.5	0.375	0.125
BovineHD1800000964	18	3336203	G/A	0.4988	0.5	0.375	0.125
BovineHD1800001350	18	4617525	A/C	0.4992	0.5	0.375	0.125
chr18: 5353628	18	5353628	C/T	0.4836	0.5	0.375	0.125
chr18: 7950372	18	7950372	A/G	0.4984	0.5	0.375	0.125
chr18: 10756875	18	10756875	G/A	0.4984	0.5	0.375	0.125
chr18: 12449822	18	12449822	A/C	0.4912	0.5	0.375	0.125
chr18: 14710828	18	14710828	C/A	0.4601	0.497	0.373	0.123
chr18: 16187740	18	16187740	G/A	0.494	0.5	0.375	0.125
chr18: 18435022	18	18435022	G/A	0.4968	0.5	0.375	0.125
chr18: 20350656	18	20350656	A/G	0.4984	0.5	0.375	0.125
BovineHD1800006908	18	22442470	C/T	0.4984	0.5	0.375	0.125
chr18: 24273529	18	24273529	A/G	0.5	0.5	0.375	0.125
chr18: 26690572	18	26690572	A/C	0.4724	0.499	0.374	0.124
chr18: 29189137	18	29189137	T/C	0.4972	0.5	0.375	0.125
chr18: 30525057	18	30525057	G/A	0.49	0.5	0.375	0.125
chr18: 32419138	18	32419138	A/G	0.4996	0.5	0.375	0.125
chr18: 35199090	18	35199090	A/G	0.5	0.5	0.375	0.125
chr18: 36326398	18	36326398	C/A	0.4832	0.5	0.375	0.125
chr18: 39871022	18	39871022	A/G	0.4968	0.5	0.375	0.125
BovineHD1800012278	18	41585347	G/A	0.4545	0.496	0.373	0.123
chr18: 44684830	18	44684830	C/T	0.4804	0.499	0.375	0.125
chr18: 47852446	18	47852446	A/G	0.4944	0.5	0.375	0.125
chr18: 50636269	18	50636269	C/T	0.4605	0.497	0.373	0.123
BovineHD1900000881	19	3780300	G/A	0.5	0.5	0.375	0.125
BovineHD1900001085	19	4588941	A/G	0.4996	0.5	0.375	0.125
BovineHD1900002258	19	8324786	T/C	0.4984	0.5	0.375	0.125
chr19: 9589798	19	9589798	G/T	0.4836	0.5	0.375	0.125
chr19: 11774713	19	11774713	T/C	0.4972	0.5	0.375	0.125
chr19: 13478080	19	13478080	G/C	0.4952	0.5	0.375	0.125
BovineHD1900003935	19	14774749	G/A	0.4633	0.497	0.374	0.124
chr19: 15369234	19	15369234	A/G	0.4712	0.499	0.374	0.124
chr19: 18798193	19	18798193	T/A	0.4992	0.5	0.375	0.125
chr19: 20993189	19	20993189	C/T	0.4972	0.5	0.375	0.125
chr19: 22593676	19	22593676	A/T	0.4944	0.5	0.375	0.125
chr19: 24034883	19	24034883	T/G	0.4661	0.498	0.374	0.124
chr19: 28007039	19	28007039	T/G	0.4988	0.5	0.375	0.125
chr19: 30734931	19	30734931	T/G	0.4329	0.491	0.37	0.121
chr19: 33298629	19	33298629	G/C	0.4944	0.5	0.375	0.125
chr19: 36967680	19	36967680	A/G	0.4968	0.5	0.375	0.125
chr19: 38804144	19	38804144	G/C	0.492	0.5	0.375	0.125
chr19: 40065445	19	40065445	G/A	0.4984	0.5	0.375	0.125
chr19: 42493450	19	42493450	C/T	0.4976	0.5	0.375	0.125
chr19: 44405075	19	44405075	A/G	0.4732	0.499	0.374	0.124
chr19: 46011586	19	46011586	G/C	0.4816	0.5	0.375	0.125
chr19: 48332465	19	48332465	G/A	0.4708	0.498	0.374	0.124
chr19: 50508663	19	50508663	T/C	0.4768	0.499	0.374	0.124
BovineHD1900015032	19	53717829	C/T	0.4968	0.5	0.375	0.125
chr19: 55308139	19	55308139	A/C	0.4976	0.5	0.375	0.125
chr19: 57917130	19	57917130	G/T	0.4976	0.5	0.375	0.125
chr19: 59940672	19	59940672	G/T	0.486	0.5	0.375	0.125
chr19: 62032271	19	62032271	A/G	0.4944	0.5	0.375	0.125
chr19: 64016415	19	64016415	A/G	0.4525	0.496	0.373	0.123
BovineHD2000000176	20	618962	C/A	0.5	0.5	0.375	0.125
chr20: 1453145	20	1453145	G/C	0.4996	0.5	0.375	0.125
chr20: 3233514	20	3233514	A/C	0.3798	0.471	0.36	0.111
BovineHD2000001651	20	5217883	A/G	0.5	0.5	0.375	0.125
Hapmap39533-BTA-108830	20	7143287	A/C	0.4964	0.5	0.375	0.125
chr20: 9325003	20	9325003	T/C	0.4673	0.498	0.374	0.124
chr20: 11247384	20	11247384	A/T	0.4984	0.5	0.375	0.125
chr20: 13170776	20	13170776	T/C	0.4832	0.5	0.375	0.125
chr20: 14423688	20	14423688	A/G	0.4405	0.493	0.371	0.121
chr20: 16164218	20	16164218	G/T	0.4872	0.5	0.375	0.125
chr20: 18196116	20	18196116	G/A	0.4996	0.5	0.375	0.125
chr20: 20454853	20	20454853	A/G	0.4984	0.5	0.375	0.125
chr20: 22542502	20	22542502	C/T	0.4992	0.5	0.375	0.125
chr20: 24625191	20	24625191	G/A	0.4992	0.5	0.375	0.125
chr20: 26041808	20	26041808	G/A	0.4832	0.5	0.375	0.125
chr20: 28033599	20	28033599	A/G	0.4912	0.5	0.375	0.125
chr20: 30619168	20	30619168	G/A	0.4964	0.5	0.375	0.125
chr20: 32945313	20	32945313	T/G	0.4992	0.5	0.375	0.125
BovineHD2000010338	20	36100687	A/C	0.4944	0.5	0.375	0.125
chr20: 38864330	20	38864330	G/A	0.4836	0.5	0.375	0.125
chr20: 40184905	20	40184905	G/A	0.4988	0.5	0.375	0.125
chr20: 44132733	20	44132733	C/A	0.4872	0.5	0.375	0.125
BovineHD2000016809	20	59809528	C/T	0.4653	0.498	0.374	0.124
BovineHD2000019528	20	67358359	A/G	0.4996	0.5	0.375	0.125
chr21: 672490	21	672490	T/C	0.3714	0.467	0.358	0.109
BovineHD2100000817	21	4753621	T/C	0.4964	0.5	0.375	0.125
BovineHD2100001634	21	7558076	C/T	0.4988	0.5	0.375	0.125
ARS-BFGL-NGS-58825	21	12917017	G/T	0.4984	0.5	0.375	0.125
BovineHD2100003468	21	13235956	A/G	0.488	0.5	0.375	0.125
chr21: 16243319	21	16243319	T/C	0.4792	0.499	0.375	0.125
chr21: 18091875	21	18091875	A/G	0.4964	0.5	0.375	0.125
chr21: 19663762	21	19663762	C/T	0.4928	0.5	0.375	0.125
chr21: 21677147	21	21677147	C/G	0.4932	0.5	0.375	0.125
chr21: 23145931	21	23145931	T/C	0.4968	0.5	0.375	0.125
chr21: 25634112	21	25634112	G/A	0.4844	0.5	0.375	0.125
chr21: 27140935	21	27140935	T/C	0.4932	0.5	0.375	0.125
chr21: 28854577	21	28854577	A/T	0.4952	0.5	0.375	0.125
chr21: 31440243	21	31440243	G/A	0.4996	0.5	0.375	0.125
chr21: 33089284	21	33089284	G/A	0.4445	0.494	0.372	0.122
BovineHD2100010614	21	36212484	G/T	0.5	0.5	0.375	0.125
chr21: 38895994	21	38895994	T/C	0.498	0.5	0.375	0.125
chr21: 42412964	21	42412964	T/C	0.47	0.498	0.374	0.124
chr21: 44091783	21	44091783	T/A	0.5	0.5	0.375	0.125
chr21: 46136490	21	46136490	C/T	0.4996	0.5	0.375	0.125
chr21: 49990739	21	49990739	G/A	0.4996	0.5	0.375	0.125
chr21: 52183591	21	52183591	T/A	0.498	0.5	0.375	0.125
chr21: 54577771	21	54577771	G/C	0.4293	0.49	0.37	0.12
chr21: 56258756	21	56258756	T/G	0.4301	0.49	0.37	0.12
chr21: 59331618	21	59331618	T/G	0.4792	0.499	0.375	0.125
chr21: 68760593	21	68760593	C/T	0.4413	0.493	0.372	0.122
BovineHD2200001407	22	5059795	C/T	0.496	0.5	0.375	0.125
BovineHD2200002001	22	6637551	T/C	0.4305	0.491	0.37	0.12
chr22: 6781996	22	6781996	G/C	0.4916	0.5	0.375	0.125
chr22: 9048837	22	9048837	C/T	0.49	0.5	0.375	0.125
chr22: 11789736	22	11789736	A/G	0.4457	0.494	0.372	0.122
chr22: 14617876	22	14617876	C/T	0.496	0.5	0.375	0.125
chr22: 16936005	22	16936005	T/C	0.4932	0.5	0.375	0.125
ARS-BFGL-NGS-35294	22	18774368	G/A	0.4928	0.5	0.375	0.125
chr22: 20588609	22	20588609	T/C	0.4633	0.497	0.374	0.124
chr22: 22391024	22	22391024	A/G	0.5	0.5	0.375	0.125
chr22: 24938859	22	24938859	C/A	0.4956	0.5	0.375	0.125
chr22: 27440977	22	27440977	G/A	0.4952	0.5	0.375	0.125
chr22: 31086034	22	31086034	C/T	0.4868	0.5	0.375	0.125
chr22: 35381808	22	35381808	C/A	0.4972	0.5	0.375	0.125
chr22: 36755505	22	36755505	T/C	0.478	0.499	0.375	0.125
chr22: 38682942	22	38682942	T/C	0.4996	0.5	0.375	0.125
chr22: 39367205	22	39367205	T/C	0.4329	0.491	0.37	0.121
chr22: 41413753	22	41413753	A/G	0.4896	0.5	0.375	0.125
chr22: 44998145	22	44998145	T/C	0.4996	0.5	0.375	0.125
chr22: 47307004	22	47307004	G/C	0.5	0.5	0.375	0.125
chr22: 49463695	22	49463695	T/C	0.4189	0.487	0.368	0.119
chr22: 56554292	22	56554292	T/C	0.4984	0.5	0.375	0.125
chr22: 61422322	22	61422322	G/A	0.484	0.5	0.375	0.125
chr23: 737731	23	737731	A/G	0.4269	0.49	0.37	0.12
BovineHD2300001017	23	4401397	T/C	0.4832	0.5	0.375	0.125
BovineHD2300001206	23	5077287	C/T	0.4836	0.5	0.375	0.125
chr23: 7313850	23	7313850	C/A	0.4984	0.5	0.375	0.125
chr23: 9586831	23	9586831	T/A	0.4996	0.5	0.375	0.125
chr23: 12553957	23	12553957	G/A	0.4996	0.5	0.375	0.125
ARS-BFGL-NGS-78514	23	14313819	C/T	0.4908	0.5	0.375	0.125
chr23: 16538832	23	16538832	A/G	0.4948	0.5	0.375	0.125
chr23: 18262499	23	18262499	C/T	0.4772	0.499	0.374	0.124
chr23: 20970270	23	20970270	A/G	0.4904	0.5	0.375	0.125
chr23: 22621637	23	22621637	A/G	0.4932	0.5	0.375	0.125
chr23: 24292015	23	24292015	G/T	0.4533	0.496	0.373	0.123
chr23: 25670252	23	25670252	G/A	0.3854	0.474	0.362	0.112
chr23: 27655408	23	27655408	T/G	0.4944	0.5	0.375	0.125
chr23: 30553540	23	30553540	T/C	0.4944	0.5	0.375	0.125
chr23: 32360632	23	32360632	T/C	0.4625	0.497	0.374	0.124
chr23: 34492864	23	34492864	A/T	0.494	0.5	0.375	0.125
chr23: 36557706	23	36557706	T/C	0.4848	0.5	0.375	0.125
chr23: 39647590	23	39647590	C/T	0.4896	0.5	0.375	0.125
chr23: 41416362	23	41416362	A/G	0.4796	0.499	0.375	0.125
chr23: 43316240	23	43316240	G/A	0.4213	0.488	0.369	0.119
chr23: 45422704	23	45422704	C/T	0.4992	0.5	0.375	0.125
chr23: 47896708	23	47896708	C/T	0.4992	0.5	0.375	0.125
chr23: 50385911	23	50385911	G/T	0.4317	0.491	0.37	0.12
chr23: 52503653	23	52503653	G/A	0.4429	0.494	0.372	0.122
chr24: 1498986	24	1498986	C/T	0.4932	0.5	0.375	0.125
BovineHD2400001782	24	6635248	T/C	0.4908	0.5	0.375	0.125
BovineHD2400002974	24	10461518	T/G	0.4692	0.498	0.374	0.124
BovineHD2400003128	24	11043284	G/T	0.4776	0.499	0.374	0.125
chr24: 12213557	24	12213557	G/A	0.4984	0.5	0.375	0.125
chr24: 14917351	24	14917351	C/A	0.4992	0.5	0.375	0.125
chr24: 17169312	24	17169312	T/C	0.4996	0.5	0.375	0.125
chr24: 19292120	24	19292120	G/C	0.498	0.5	0.375	0.125
chr24: 21820599	24	21820599	T/C	0.474	0.499	0.374	0.124
chr24: 23901873	24	23901873	T/C	0.4888	0.5	0.375	0.125
chr24: 26177933	24	26177933	C/T	0.4201	0.487	0.369	0.119
chr24: 27712396	24	27712396	T/A	0.4545	0.496	0.373	0.123
chr24: 30518675	24	30518675	C/G	0.4972	0.5	0.375	0.125
chr24: 34261251	24	34261251	C/T	0.4728	0.499	0.374	0.124
chr24: 36738426	24	36738426	C/A	0.4996	0.5	0.375	0.125
chr24: 39303552	24	39303552	G/A	0.498	0.5	0.375	0.125
chr24: 42418587	24	42418587	T/A	0.4856	0.5	0.375	0.125
chr24: 44987204	24	44987204	T/C	0.4904	0.5	0.375	0.125
chr24: 47032284	24	47032284	A/C	0.5	0.5	0.375	0.125
chr24: 49816564	24	49816564	C/A	0.4984	0.5	0.375	0.125
BovineHD2400014878	24	52567761	T/C	0.498	0.5	0.375	0.125
chr24: 54141039	24	54141039	T/G	0.4868	0.5	0.375	0.125
chr24: 57719811	24	57719811	A/G	0.4513	0.495	0.373	0.123
chr24: 59845272	24	59845272	C/T	0.4832	0.5	0.375	0.125
chr24: 62616509	24	62616509	T/C	0.4988	0.5	0.375	0.125
BovineHD2500000375	25	1817313	C/T	0.4824	0.5	0.375	0.125
chr25: 2270319	25	2270319	C/A	0.4904	0.5	0.375	0.125
BovineHD2500000754	25	3526794	A/C	0.4996	0.5	0.375	0.125
chr25: 5235133	25	5235133	A/G	0.4848	0.5	0.375	0.125
chr25: 7435898	25	7435898	C/A	0.4988	0.5	0.375	0.125
chr25: 9485224	25	9485224	C/T	0.4856	0.5	0.375	0.125
chr25: 11983738	25	11983738	A/G	0.4972	0.5	0.375	0.125
chr25: 14309813	25	14309813	A/G	0.4888	0.5	0.375	0.125
chr25: 16824007	25	16824007	G/C	0.498	0.5	0.375	0.125
chr25: 20265328	25	20265328	A/T	0.498	0.5	0.375	0.125
chr25: 23776686	25	23776686	A/T	0.5	0.5	0.375	0.125
chr25: 25356383	25	25356383	G/A	0.476	0.499	0.374	0.124
BovineHD2500007701	25	27570361	A/G	0.4988	0.5	0.375	0.125
BovineHD2500008282	25	29754420	A/G	0.4996	0.5	0.375	0.125
chr25: 31426099	25	31426099	C/T	0.4932	0.5	0.375	0.125
chr25: 33447705	25	33447705	G/A	0.4992	0.5	0.375	0.125
chr25: 35354192	25	35354192	G/A	0.4928	0.5	0.375	0.125
chr25: 37706882	25	37706882	C/T	0.4948	0.5	0.375	0.125
chr25: 39617743	25	39617743	T/C	0.4996	0.5	0.375	0.125
chr25: 41421831	25	41421831	G/C	0.4816	0.5	0.375	0.125
BovineHD2600000537	26	3159275	A/G	0.4976	0.5	0.375	0.125
BovineHD2600001618	26	7064821	T/G	0.4764	0.499	0.374	0.124
chr26: 8295838	26	8295838	T/A	0.4988	0.5	0.375	0.125
chr26: 10496908	26	10496908	A/G	0.492	0.5	0.375	0.125
chr26: 12492633	26	12492633	G/C	0.4968	0.5	0.375	0.125
chr26: 15552507	26	15552507	A/T	0.4637	0.498	0.374	0.124
chr26: 18648652	26	18648652	G/A	0.4984	0.5	0.375	0.125
chr26: 20477934	26	20477934	G/A	0.4996	0.5	0.375	0.125
chr26: 23396729	26	23396729	C/T	0.5	0.5	0.375	0.125
chr26: 27384764	26	27384764	A/C	0.4924	0.5	0.375	0.125
chr26: 30073565	26	30073565	A/G	0.4936	0.5	0.375	0.125
chr26: 32876281	26	32876281	A/T	0.4992	0.5	0.375	0.125
chr26: 36469097	26	36469097	G/A	0.4996	0.5	0.375	0.125
BovineHD2600010617	26	38760186	A/G	0.5	0.5	0.375	0.125
chr26: 40450911	26	40450911	T/G	0.5	0.5	0.375	0.125
chr26: 44726125	26	44726125	T/C	0.5	0.5	0.375	0.125
chr26: 46922819	26	46922819	C/T	0.4976	0.5	0.375	0.125
chr26: 50226218	26	50226218	G/A	0.5	0.5	0.375	0.125
chr27: 103736	27	103736	C/T	0.4908	0.5	0.375	0.125
chr27: 1101354	27	1101354	A/G	0.4916	0.5	0.375	0.125
chr27: 3226775	27	3226775	C/A	0.4764	0.499	0.374	0.124
chr27: 5017483	27	5017483	T/C	0.4992	0.5	0.375	0.125
BovineHD2700002543	27	8093753	A/C	0.4972	0.5	0.375	0.125
chr27: 8768007	27	8768007	T/A	0.4796	0.499	0.375	0.125
BovineHD2700003358	27	11305871	T/C	0.4988	0.5	0.375	0.125
chr27: 12767506	27	12767506	T/C	0.4992	0.5	0.375	0.125
chr27: 14747630	27	14747630	T/A	0.4752	0.499	0.374	0.124
chr27: 16188798	27	16188798	G/A	0.4888	0.5	0.375	0.125
chr27: 18631002	27	18631002	G/A	0.4988	0.5	0.375	0.125
chr27: 20739697	27	20739697	A/T	0.4764	0.499	0.374	0.124
chr27: 23238215	27	23238215	G/A	0.496	0.5	0.375	0.125
chr27: 25163977	27	25163977	A/T	0.4081	0.483	0.366	0.117
chr27: 27780471	27	27780471	A/T	0.4936	0.5	0.375	0.125
chr27: 29007650	27	29007650	C/T	0.4976	0.5	0.375	0.125
chr27: 32882318	27	32882318	G/C	0.4992	0.5	0.375	0.125
chr27: 34293543	27	34293543	C/T	0.4609	0.497	0.373	0.123
chr27: 37259753	27	37259753	T/C	0.4908	0.5	0.375	0.125
chr27: 39274159	27	39274159	C/T	0.4944	0.5	0.375	0.125
chr27: 41321218	27	41321218	A/C	0.4968	0.5	0.375	0.125
chr28: 140159	28	140159	T/A	0.4812	0.499	0.375	0.125
chr28: 2239999	28	2239999	C/T	0.4996	0.5	0.375	0.125
chr28: 4180876	28	4180876	C/G	0.4984	0.5	0.375	0.125
BovineHD2800001838	28	6164460	G/A	0.4728	0.499	0.374	0.124
chr28: 8465913	28	8465913	T/C	0.498	0.5	0.375	0.125
BovineHD4100018502	28	9663509	C/T	0.4976	0.5	0.375	0.125
BovineHD2800003355	28	11042073	T/C	0.4393	0.493	0.371	0.121
chr28: 13676267	28	13676267	T/C	0.4996	0.5	0.375	0.125
BovineHD2800004610	28	16557050	G/A	0.4884	0.5	0.375	0.125
chr28: 18341653	28	18341653	T/A	0.4752	0.499	0.374	0.124
chr28: 20964219	28	20964219	G/T	0.5	0.5	0.375	0.125
chr28: 22247295	28	22247295	A/T	0.496	0.5	0.375	0.125
chr28: 25042637	28	25042637	A/C	0.4852	0.5	0.375	0.125
chr28: 28278314	28	28278314	G/A	0.4956	0.5	0.375	0.125
chr28: 30097594	28	30097594	T/A	0.4988	0.5	0.375	0.125
chr28: 32561401	28	32561401	G/A	0.4952	0.5	0.375	0.125
BovineHD2800009155	28	34089913	C/A	0.4888	0.5	0.375	0.125
chr28: 36080441	28	36080441	T/C	0.4956	0.5	0.375	0.125
chr28: 38019304	28	38019304	C/T	0.4992	0.5	0.375	0.125
chr28: 40659487	28	40659487	G/C	0.4996	0.5	0.375	0.125
chr28: 42821390	28	42821390	C/T	0.4984	0.5	0.375	0.125
chr28: 44511041	28	44511041	C/G	0.4988	0.5	0.375	0.125
chr28: 45635975	28	45635975	C/T	0.4992	0.5	0.375	0.125
chr29: 1772654	29	1772654	A/G	0.4836	0.5	0.375	0.125
chr29: 3970906	29	3970906	G/A	0.498	0.5	0.375	0.125
BovineHD2900002113	29	7484023	A/C	0.4653	0.498	0.374	0.124
chr29: 9604215	29	9604215	G/C	0.4968	0.5	0.375	0.125
chr29: 11737448	29	11737448	A/G	0.4968	0.5	0.375	0.125
chr29: 14120989	29	14120989	A/G	0.4968	0.5	0.375	0.125
BovineHD2900004975	29	16675393	G/A	0.486	0.5	0.375	0.125
chr29: 19524544	29	19524544	T/G	0.4976	0.5	0.375	0.125
chr29: 21310589	29	21310589	C/G	0.4864	0.5	0.375	0.125
chr29: 23512363	29	23512363	A/C	0.4992	0.5	0.375	0.125
chr29: 25651720	29	25651720	A/G	0.4996	0.5	0.375	0.125
chr29: 29237021	29	29237021	C/T	0.4932	0.5	0.375	0.125
chr29: 31663327	29	31663327	A/G	0.4481	0.495	0.372	0.122
chr29: 34085155	29	34085155	G/A	0.4996	0.5	0.375	0.125
chr29: 36484686	29	36484686	C/A	0.4984	0.5	0.375	0.125
chr29: 39714340	29	39714340	A/T	0.4844	0.5	0.375	0.125
chr29: 43321959	29	43321959	A/G	0.4988	0.5	0.375	0.125
chr29: 46568838	29	46568838	T/G	0.4988	0.5	0.375	0.125
chr29: 48902564	29	48902564	G/A	0.4888	0.5	0.375	0.125
BovineHD2900014811	29	50783100	G/A	0.4976	0.5	0.375	0.125

The present disclosure further provides a probe for identifying the SNP molecular marker combination.

In the present disclosure, there is no special limitation on a design method of the probe, which can be designed using conventional methods in the field, and can be designed to meet specific recognition and binding to the corresponding SNP sites.

The present disclosure further provides a gene chip prepared based on the SNP molecular marker combination.

In the present disclosure, the gene chip preferably includes a liquid chip. The liquid chip can visually determine a genotype of the site corresponding to the SNP molecular marker, thereby facilitating the determination of genetic relationship.

The present disclosure further provides use of the SNP molecular marker combination or the probe or the gene chip in genetic relationship identification of a Huaxi cattle.

In the present disclosure, a genomic DNA of a Huaxi cattle to be tested is used as a template when identifying the genetic relationship of the Huaxi cattle; the genotype of the SNP molecular marker site is determined using conventional means in this field, such as sequencing and gene chip; and paternity testing is conducted based on a likelihood method. Preferably, a logarithm of the odds (LOD) value of a paternity index is calculated based on the genotype of the Huaxi cattle to be tested, a likelihood function is established, and a hypothesis testing is conducted to find the most similar male parent. The process and calculation method are as follows:

The results are obtained according to the calculation formula proposed by Kalinowski et al. (2007): Kalinowski S T, Taper M L, Marshall T C. Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment [J]. Molecular ecology, 2007, 16(5): 1099-1106.

(1) a possibility of a hypothetical male parent becoming a true male parent when a maternal genotype is unknown:

L ⁡ ( H 1 ) = P ⁡ ( g a ) ⁢ { ( 1 - ε ) 2 ⁢ T ⁡ ( g o ❘ g a ) + ε ⁡ ( 1 - ε ) 2 ⁢ P ⁡ ( g o ) + ε 2 ⁢ P ⁡ ( g o ) } ⁢ L ⁡ ( H 2 ) = P ⁡ ( g a ) ⁢ { ( 1 - ε ) 2 ⁢ P ⁡ ( g o ) + ε ⁡ ( 1 - ε ) 2 ⁢ P ⁡ ( g o ) + ε 2 ⁢ P ⁡ ( g o ) }

(2) a possibility of a hypothetical male parent becoming a true male parent when a maternal genotype is known:

L ⁡ ( H 1 ) = P ⁡ ( g m ) ⁢ P ⁡ ( g a ) ⁢ { ( 1 - ε ) 3 ⁢ T ⁡ ( g o ❘ g m , g a ) + ε ⁡ ( 1 - ε ) 2 [ T ⁡ ( g o ❘ g m ) + T ⁡ ( g o ❘ g a ) + P ⁡ ( g o ) ] + ε 2 ( 1 - ε ) 3 ⁢ P ⁡ ( g o ) + ε 3 ⁢ P ⁡ ( g o ) } ⁢ L ⁡ ( H 2 ) = P ⁡ ( g m ) ⁢ P ⁡ ( g a ) ⁢ { ( 1 - ε ) 3 ⁢ T ⁡ ( g o ❘ g m ) + ε ⁡ ( 1 - ε ) 2 [ T ⁡ ( g o ❘ g m ) + P ⁡ ( g o ) ] + ε 2 ( 1 - ε ) 3 ⁢ P ⁡ ( g o ) + ε 3 ⁢ P ⁡ ( g o ) } .

(3) a possibility of a hypothetical female parent and a hypothetical male parent becoming parents of an offspring individual:

L ⁡ ( H 1 ) = P ⁡ ( g am ) ⁢ P ⁡ ( g a ) ⁢ { ( 1 - ε ) 3 ⁢ T ⁡ ( g o ❘ g am , g a ) + ε ⁡ ( 1 - ε ) 2 [ T ⁡ ( g o ❘ g am ) + T ⁡ ( g o ❘ g a ) + P ⁡ ( g o ) ] + ε 2 ( 1 - ε ) 3 ⁢ P ⁡ ( g o ) + ε 3 ⁢ P ⁡ ( g o ) } ⁢ L ⁡ ( H 2 ) = P ⁡ ( g ma ) ⁢ P ⁡ ( g a ) ⁢ { ( 1 - ε ) 3 ⁢ P ⁡ ( g o ) + ε ⁡ ( 1 - ε ) 2 ⁢ P ⁡ ( g o ) + ε 2 ( 1 - ε ) 3 ⁢ P ⁡ ( g o ) + ε 3 ⁢ P ⁡ ( g o ) } .

(4) an expression formula of a likelihood ratio is: L(H₁)/L(H₂), then:

LOD = ln [ L ⁡ ( H 1 ) / L ⁡ ( H 2 ) ]

In the above formulas, H₁: hypothetical male parent is a true male parent, H₂: hypothetical male parent is an unrelated individual. L(H₁) and L(H₂) represent likelihood functions under hypothetical conditions H. g_o represents a genotype of the offspring, g_a represents a genotype of the hypothetical male parent, g_m represents a genotype of the known female parent, g_am represents a genotype of the hypothetical female parent, T represents a standard Mendelian transmission probability, P represents a genotype probability, and ε represents a genotype discrimination error rate.

According to the above calculation formulas, the LOD value of the likelihood ratio of each candidate parent at all detection sites can be obtained, and the possibility that the candidate parent is the true parent of the offspring can be known, such that the genetic relationship between the parent-child pair can be determined.

Marshall et al. have also pointed out based on the definition of LOD value that LOD value equal to 0 means that the hypothetical male parent has the same probability of becoming the true male parent of the offspring as a random male individual in the population. An LOD value less than 0 means that the hypothetical male parent cannot be the true male parent of the offspring, which generally means that there is a genotype mismatch at one or more loci between the hypothetical male parent and the offspring. When LOD is greater than 0, it means that the hypothetical male parent is more likely to be the true parent of the offspring. When the LOD value is high enough, the genetic relationship between the offspring and the candidate male parent can be determined.

When the LOD values calculated by multiple candidate parents are all greater than 0, then they may all become the true male parents of the offspring, but there is actually only one true male parent. At this time, the candidate parents can be lined up according to the size of the LOD value. The one with a higher LOD value is more likely to become the true male parent. However, sometimes there may be some positive LOD values that are approximately equal, making the determination difficult. In view of this situation, Marshall et al. (Marshall T C, Slate J, Kruuk L E B, et al. Statistical confidence for likelihood-based paternity inference in natural populations [J]. Molecular ecology, 1998, 7(5): 639-655.) have defined a statistic Δ for paternity testing:

Δ = LOD max - LOD sec

Δ is the statistic to evaluate the credibility of the identification results. LOD_max represents the LOD value of the most similar parent, and LOD_sec represents the LOD value of the second similar parent. The larger the value of Δ, the higher the confidence that the most similar parent is the true parent. Δ for paternity testing can ensure an accuracy of the identification. Meanwhile, the confidence level of the most similar parent assignment is also be displayed: * indicates that the parent-child relationship is extremely significant, and the confidence level exceeds 95%; + indicates that the parent-child relationship is significant, and the confidence level exceeds 80%; and − indicates that the parent-child relationship does not meet the significant requirements, and the confidence level is 0% to 80%.

Therefore, the method for genetic relationship identification of a Huaxi cattle provided by the present disclosure includes: calculating an LOD value of a paternity index according to the genotype of the Huaxi cattle to be identified; and identifying a genetic relationship of the Huaxi cattle to be identified based on the LOD value. When the LOD value is greater than 0, a candidate parent has a possibility of being a true parent, and an individual with a maximum LOD value is regarded as a most similar parent; and when the LOD value is less than 0, the candidate parent does not have the possibility of being the true parent.

The present disclosure further provides use of the SNP molecular marker combination or the probe or the gene chip in improved genetic breeding of a Huaxi cattle.

In the present disclosure, the SNP molecular marker combination and corresponding products can be used for complete and accurate pedigree identification of the Huaxi cattle, improving a breeding accuracy and accelerating a genetic progress of the Huaxi cattle, and exhibit excellent application prospects and economic benefits.

The present disclosure further provides a method for genetic relationship identification of a Huaxi cattle, including the following steps: identifying a genotype of the SNP molecular marker combination using a genomic DNA of a Huaxi cattle to be identified as a template; calculating an logarithm of the odds (LOD) value of a paternity index according to the genotype of the Huaxi cattle to be identified; and identifying a genetic relationship of the Huaxi cattle to be identified based on the LOD value.

In the present disclosure, a specific LOD calculation method is the same as above and will not be repeated here. Similarly, the LOD value is greater than 0, a candidate parent has a possibility of being a true parent, and an individual with a maximum LOD value is regarded as a most similar parent; and when the LOD value is less than 0, the candidate parent does not have the possibility of being the true parent.

In order to further illustrate the present disclosure, the SNP molecular marker combination for genetic relationship identification of a Huaxi cattle, the use, and the identification method provided by the present disclosure are detail below in connection with accompanying drawings and examples, but these examples should not be understood as limiting the claimed scope of the present disclosure.

Unless otherwise specified, technical means used in the examples are well known to those skilled in the art, and all chemical reagents used are commercially available.

Example 1

Screening of 1,000 SNP molecular markers related to genetic relationship identification of Huaxi cattle

1. Screening of SNP Molecular Markers Related to Genetic Relationship Identification of Huaxi Cattle

Second-generation sequencing was conducted on 1,252 Huaxi cattle from the Ulgai Management Area in Inner Mongolia using the Illumina platform, and a total of 12,468,401 SNP molecular markers were obtained. The following quality control criteria were adopted to select the SNPs: (1) SNP located on an autosome; (2) MAF of greater than 0.35; (3) call rate of each SNP marker of greater than 0.95; (4) a distance between two adjacent SNPs on a same autosome of greater than 1 Mb; and screening conducted on separate chromosomes in order to avoid linkage disequilibrium between the selected SNP molecular markers; (5) Hardy-Weinberg equilibrium test (HW) P>1×10⁶. 17,023 SNP sites were obtained through preliminary screening.

The genetic polymorphism parameters of the 17,023 SNPs were calculated using CERVUS3.0.7 software, including: MAF, HExp, PIC, Hardy-Weinberg equilibrium, average PE of excluding a suspected parent, CPE of site combination, and invalid allele frequency (IAF).

According to the statistical results of each parameter, the chromosomes were selected separately again. The sites were re-sequenced according to PE. According to PIC and referring to MAF, the site with the highest parameter value is retained under the condition that a distance between two adjacent SNPs on a same autosome is greater than 2 Mb. There are eventually 1,000 markers that are selected. The number distribution of SNP sites on each chromosome was shown in Table 2.

Table 2 Number of SNPs on each autosome and distance between two adjacent SNPs

Chromosome	Number of SNPs	Average distance

1	73	2148861
2	60	2240010
3	58	2073332
4	54	2136631
5	56	2152963
6	37	3077272
7	40	2722233
8	45	2360971
9	40	2513461
10	45	2262732
11	37	2759505
12	26	3302410
13	24	3418445
14	31	2707235
15	34	2470821
16	38	2147451
17	24	3034389
18	24	2063845
19	29	2077107
20	24	2780808
21	26	2618773
22	23	2450545
23	25	2070637
24	25	2444701
25	20	1980226
26	18	2614830
27	21	1962737
28	23	1978079
29	20	2450522

The final SNP molecular marker combination included 1,000 SNP sites shown in Table 1, and the average distance between two adjacent sites on the same autosome was 2 Mb. The average values of MAF, HExp, and PIC of the marker combination were 0.4846, 0.4983, and 0.3741, respectively; the 1,000 SNP molecular markers had a CPE of 0.9999999999999, making paternity testing extremely efficient.

2. Establishment of a System for Genetic Relationship Identification of Huaxi Cattle Based on SNP Markers

The greater the number of SNP markers, the higher the accuracy of identifying their genetic relationships. The detection costs varied depending on the number of SNP markers. Since in different actual productions, operational difficulty and inspection costs might vary greatly. In order to meet the needs of various situations, the highest paternity test accuracy was achieved at the most reasonable cost. In this example, the minimum number of SNPs in the combination required to achieve ideal identification effectiveness under different circumstances was finally determined through simulation studies and verification in the Huaxi cattle population.

1,000 SNP markers were randomly divided into sub-combinations containing 500, 300, 200, 100, 80, 70, 60, 50, 40, 30, and 20 to determine the minimum number of SNP markers required under different circumstances. A simulation experiment of paternity testing was conducted using CERVUS3.0.7 software to determine the most suitable SNP combination.

The simulation parameter settings included: a site typing success rate of 1, an analysis error rate of 0.01, critical values of confidence at 80% and 95%, a number of simulated offspring of 10,000, and a candidate parent detection rate of 100%. Statistical analysis of the simulation results (Table 3) found that CPE1 increased from 0.93051929 (20 SNPs) to 1 (200 SNPs), CPE2 increased from 0.98424600 (20 SNPs) to 1 (100 SNPs to 200 SNPs), and CPE3 increased from 0.998644213 (20 SNPs) to 1 (60 SNPs to 200 SNPs). When the site increased to a certain extent, the exclusion rate remained unchanged and reached a maximum of 1. As shown in Table 3, when the number of SNP markers reached 70, both CPE1 and CPE2 exceeded 99.99%, and CPE3 reached 1. The allocation rate of paternity testing (80% and 95% confidence levels) of not less than 70 SNP markers could reach 100%. Moreover, at a paternity confidence level of 95%, the proportion of paternity inference could reach 100%.

Therefore, simulation studies showed that in order to ensure ideal identification efficiency, at least 70 sites were required to form a marker combination in practical applications. This study finally selected 1,000 SNP markers to form the SNP marker combination for genetic relationship identification in the Huaxi cattle population (Table 1).

TABLE 3
PE, allocation rate, and inference rate of different gradient combinations

80% confidence level

95% confidence level

Number				Allocation	Inference	Allocation	Inference
of SNPs	CPE1	CPE2	CPE3	rate	rate	rate	rate

20	0.93051929	0.98424600	0.99864213	15%	80%	2%	95%
30	0.98125744	0.99799699	0.99994905	100%	83%	69%	95%
40	0.99504842	0.99974818	0.99999812	100%	97%	100%	97%
50	0.99864010	0.99996766	0.99999993	100%	99%	100%	99%
60	0.99965263	0.99999601	1	100%	100%	100%	100%
70	0.99990483	0.99999949	1	100%	100%	100%	100%
80	0.99997562	0.99999994	1	100%	100%	100%	100%
100	0.99999827	1	1	100%	100%	100%	100%
200	1	1	1	100%	100%	100%	100%
300	1	1	1	100%	100%	100%	100%
500	1	1	1	100%	100%	100%	100%
Notes:
CPE1 represented the CPE of a suspected parent; CPE2 represented the CPE of a suspected parent when the genotype of the other parent was known; and CPE3 represented the CPE of suspected parent pairs. The allocation rate was the percentage of simulated offspring to which a parent was assigned at this confidence level, and the inference rate was the probability that the assigned parent was the true parent at this confidence level.

Example 2

The application of 1,000 SNP molecular markers shown in Table 1 in the genetic relationship identification of Huaxi cattle was shown in FIG. 1:

In order to verify the feasibility and accuracy of the selected 1,000 SNP markers for inferring paternity of Huaxi cattle in actual populations, 10 father-son pairs were selected from the Huaxi cattle population in the Ulgai Management Area of Inner Mongolia using next-generation sequencing based on the Illumina platform. The combination with clear relationship was used for verification test of paternity testing. The candidate male parents of these 10 offspring cattle (numbered A1 to A10) were set to the 14 breeding bulls (numbered P1 to P14) that had been used for breeding in this experimental group. In order to ensure the reliability of the test results, three repeated tests were conducted, each time 70 sites were randomly selected from 1,000 SNP markers to form an identification combination.

The genetic relationship was inferred using CERVUS3.0.7 software, and the results were shown in Tables 4 to 13. Specifically, taking the first test results of the A1 individual as an example, the LOD values of the 14 candidate male parents were arranged from high to low. P1 had the highest LOD value of 15.27655587, Δ value was 15.27655587, and the confidence level exceeded 95%. Therefore, P1 was the most similar parent of A1, and the LOD values of other candidate male parents were negative, indicating that the candidate parents P2 to P14 could not be the true parents of A1.

The most likely male parent was found using a combination of 1,000 SNP molecular markers in the present disclosure. The results verified by three tests were consistent with the pedigree records, and the confidence level reached 95%. This verified the accuracy and feasibility of the SNP molecular marker combination provided by the present disclosure in paternity testing of Huaxi cattle.

TABLE 4
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A1 (first time)	P1	70	0	15.27655587	15.27655587	*
	P3	70	3	−0.798560943	0
	P4	70	3	−4.219138941	0
	P10	70	6	−16.17091889	0
	P12	70	6	−19.89487249	0
	P14	70	8	−22.81955294	0
	P6	70	8	−26.61632679	0
	P5	70	8	−27.22352225	0
	P13	70	8	−30.95873714	0
	P7	70	11	−36.9207947	0
	P9	70	12	−39.02607448	0
	P8	70	12	−46.9634922	0
	P2	70	14	−52.62278889	0
	P11	70	15	−56.54278087	0
A1 (second time)	P1	70	0	20.33895066	9.422833615	*
	P3	70	2	10.91611705	0
	P13	70	6	−18.61527279	0
	P14	70	6	−20.67610141	0
	P9	70	8	−23.82143733	0
	P8	70	8	−27.3751137	0
	P10	70	9	−30.68782123	0
	P4	70	9	−30.83593178	0
	P5	70	11	−36.88888598	0
	P6	70	11	−37.33670367	0
	P7	70	11	−38.21948199	0
	P12	70	12	−38.22760624	0
	P11	70	12	−41.70389841	0
	P2	70	15	−52.52303043	0
A1 (third time)	P1	70	0	20.0790786	18.32266489	*
	P3	70	7	−13.68776522	0
	P8	70	7	−22.76529349	0
	P4	70	8	−25.14625495	0
	P12	70	7	−25.89087463	0
	P10	70	8	−25.98556226	0
	P13	70	8	−28.65862731	0
	P9	70	9	−29.42333074	0
	P5	70	8	−30.29730542	0
	P14	70	10	−34.14889145	0
	P11	70	11	−37.25445637	0
	P7	70	12	−37.78814885	0
	P2	70	12	−42.88758843	0
	P6	70	13	−45.13558649	0
Notes:
* indicated that the parent-child relationship was extremely significant, and the confidence level exceeded 95%; + indicated that the parent-child relationship was significant, and the confidence level was 80% to 95%; and − indicated that the parent-child relationship did not meet the significant requirements, and the confidence level was 0% to 80%; the same below.

TABLE 5
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A2 (first time)	P2	70	0	13.18418357	13.18418357	*
	P8	70	3	−6.959785923	0
	P1	70	4	−10.91626043	0
	P14	70	5	−12.32488352	0
	P13	70	5	−13.16474347	0
	P4	70	5	−15.26754307	0
	P7	70	7	−19.81454203	0
	P3	70	7	−23.9442168	0
	P12	70	7	−24.52800265	0
	P5	70	8	−25.08493021	0
	P10	70	8	−27.0238048	0
	P11	70	8	−27.37101623	0
	P9	70	9	−28.25617077	0
	P6	70	10	−35.04615087	0
A2 (second time)	P2	70	0	11.29577665	11.29577665	*
	P13	70	4	−9.346280482	0
	P1	70	7	−18.01053582	0
	P8	70	6	−18.25103484	0
	P9	70	7	−20.37004582	0
	P14	70	7	−23.48077567	0
	P5	70	7	−23.5775523	0
	P11	70	8	−24.16378733	0
	P10	70	7	−25.58293392	0
	P4	70	7	−25.71061396	0
	P7	70	10	−34.99878274	0
	P6	70	10	−35.32377759	0
	P3	70	10	−35.35065368	0
	P12	70	11	−40.56669855	0
A2 (third time)	P2	70	0	13.67045517	13.67045517	*
	P12	70	5	−12.63073863	0
	P14	70	6	−19.31850583	0
	P6	70	8	−25.71908272	0
	P5	70	9	−30.04343596	0
	P8	70	9	−31.48627584	0
	P10	70	10	−32.65961118	0
	P11	70	10	−33.96354381	0
	P13	70	10	−35.44348416	0
	P9	70	10	−35.52689678	0
	P4	70	12	−44.70627337	0
	P7	70	14	−50.68697135	0
	P3	70	15	−55.74985647	0
	P1	70	15	−56.40950178	0

TABLE 6
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A3 (first time)	P3	70	0	17.65817152	15.83923359	*
	P4	70	2	1.818937929	0
	P1	70	5	−3.72319063	0
	P14	70	7	−16.45570595	0
	P5	70	8	−22.95432088	0
	P12	70	8	−27.377855	0
	P7	70	11	−36.61320131	0
	P10	70	11	−37.61678853	0
	P8	70	11	−39.22610042	0
	P6	70	12	−40.73197437	0
	P13	70	13	47.48823692	0
	P9	70	15	−52.40864125	0
	P11	70	14	52.62565956	0
	P2	70	15	−52.93845129	0
A3 (second time)	P3	70	0	20.73255736	11.97081215	*
	P1	70	2	8.761745205	0
	P14	70	6	−17.95055839	0
	P4	70	7	−23.18036261	0
	P13	70	8	−27.64057013	0
	P6	70	10	−32.41541512	0
	P10	70	10	−35.41577746	0
	P2	70	11	−36.82857075	0
	P9	70	11	−37.77354431	0
	P5	70	11	−38.15154632	0
	P8	70	11	−41.41793524	0
	P11	70	13	−45.72789696	0
	P12	70	14	−49.13629215	0
	P7	70	14	−51.94051363	0
A3 (third time)	P3	70	0	19.23732995	18.51024025	*
	P1	70	6	−10.27358893	0
	P13	70	7	22.80168087	0
	P14	70	7	−23.449311	0
	P11	70	7	23.7404873	0
	P4	70	8	−24.88806342	0
	P9	70	8	−25.1518484	0
	P8	70	9	−27.0157207	0
	P5	70	8	−27.18924531	0
	P12	70	9	−30.71930002	0
	P6	70	11	−37.66082461	0
	P10	70	11	−38.02837412	0
	P7	70	13	−42.82485878	0
	P2	70	12	−44.57026097	0

TABLE 7
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A4 (first time)	P4	70	1	4.447875412	4.447875412	*
	P6	70	4	−7.234242281	0
	P11	70	4	−10.39769656	0
	P3	70	6	−16.39390576	0
	P8	70	5	−17.57537758	0
	P12	70	6	−18.1692707	0
	P2	70	7	−22.36874143	0
	P1	70	8	−22.54132755	0
	P10	70	8	−25.46248811	0
	P7	70	8	−26.13169774	0
	P5	70	9	−28.54008271	0
	P14	70	8	−28.54804304	0
	P9	70	9	−30.28189271	0
	P13	70	12	−45.84256129	0
A4 (second time)	P4	70	1	8.076631593	8.076631593	*
	P10	70	5	−15.13259516	0
	P6	70	7	−18.45953574	0
	P9	70	8	−23.1248388	0
	P11	70	9	−28.24571823	0
	P3	70	9	−28.32686404	0
	P12	70	9	−29.73527305	0
	P5	70	9	−31.50634776	0
	P13	70	10	−31.65465875	0
	P14	70	9	−32.33394983	0
	P2	70	11	−35.86671424	0
	P7	70	11	−36.18762834	0
	P8	70	11	−39.09735076	0
	P1	70	13	−42.83331045	0
A4 (third time)	P4	70	0	11.15166472	9.285727602	*
	P13	70	1	1.865937113	0
	P10	70	4	−8.450594515	0
	P2	70	5	−12.00300514	0
	P14	70	4	−15.60968043	0
	P9	70	5	−16.47215691	0
	P11	70	6	−18.36013713	0
	P12	70	6	−19.33540429	0
	P6	70	9	−31.73583046	0
	P8	70	9	−33.4966112	0
	P7	70	11	−36.7035653	0
	P3	70	11	−38.25875666	0
	P1	70	12	−40.34824853	0
	P5	70	12	−46.15780846	0

TABLE 8
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A5 (first time)	P5	70	0	11.55221854	11.55221854	*
	P4	70	5	−13.93916171	0
	P12	70	7	−24.08655426	0
	P14	70	8	−25.09301558	0
	P10	70	8	−28.36342523	0
	P8	70	8	−28.98681732	0
	P13	70	9	−29.22462872	0
	P6	70	9	−31.87105554	0
	P3	70	10	−35.90560316	0
	P11	70	11	−39.12885663	0
	P2	70	12	−41.95748369	0
	P1	70	12	−42.77436497	0
	P7	70	13	−46.20365351	0
	P9	70	13	−47.64016772	0
A5 (second time)	P5	70	0	10.93155537	10.93155537	*
	P4	70	3	−8.559470821	0
	P3	70	7	−17.00239307	0
	P8	70	5	−17.00997876	0
	P1	70	7	−18.27240548	0
	P14	70	6	−19.0577365	0
	P13	70	6	−22.1292772	0
	P12	70	7	−23.63319882	0
	P9	70	8	−24.108637	0
	P10	70	8	−28.88516353	0
	P7	70	9	−30.85961741	0
	P6	70	9	−32.58603489	0
	P2	70	10	−34.83261681	0
	P11	70	12	−41.63753407	0
A5 (third time)	P5	70	0	7.651764002	7.651764002	*
	P12	70	4	−13.27129069	0
	P6	70	4	−13.65824704	0
	P14	70	4	−14.27792222	0
	P11	70	5	−14.55944781	0
	P9	70	5	−18.09734326	0
	P13	70	5	−19.15596807	0
	P3	70	6	−19.90049798	0
	P10	70	6	−22.06005132	0
	P7	70	8	−25.02631878	0
	P4	70	8	−26.82490903	0
	P2	70	8	−27.9959658	0
	P8	70	8	−29.75035311	0
	P1	70	10	−34.89595444	0

TABLE 9
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A6 (first time)	P3	70	0	16.31424863	13.69975773	*
	P4	70	3	−7.371145054	0
	P1	70	6	−9.862608409	0
	P10	70	7	−20.62521881	0
	P14	70	8	−20.9491442	0
	P12	70	8	−26.0164155	0
	P5	70	9	−27.74035367	0
	P8	70	9	−31.39144378	0
	P13	70	10	−37.76710371	0
	P7	70	13	−45.26087869	0
	P6	70	13	−45.86156357	0
	P9	70	13	−47.05626417	0
	P11	70	15	−55.1075559	0
	P2	70	17	−63.42367779	0
A6 (second time)	P3	70	0	19.1223745	18.47185928	*
	P1	70	3	0.650515222	0
	P14	70	5	−14.77784216	0
	P9	70	6	−15.6385782	0
	P4	70	7	−22.8035097	0
	P12	70	8	−23.0437581	0
	P13	70	7	−24.08750295	0
	P8	70	7	−24.22026555	0
	P5	70	8	−26.89913641	0
	P2	70	9	−32.70390242	0
	P10	70	9	−34.82284876	0
	P6	70	11	−39.76143236	0
	P7	70	12	−43.81241265	0
	P11	70	14	−52.16845282	0
A6 (third time)	P3	70	1	12.71204085	12.71204085	*
	P1	70	5	−7.269807078	0
	P13	70	5	−16.42018041	0
	P12	70	6	−17.39136592	0
	P9	70	7	−21.82162494	0
	P5	70	7	−23.03132381	0
	P4	70	8	−24.08577339	0
	P8	70	9	−27.35673945	0
	P10	70	9	−30.27793111	0
	P11	70	10	−35.61710466	0
	P6	70	11	−35.94224478	0
	P14	70	10	−36.94505042	0
	P7	70	14	−45.10264542	0
	P2	70	13	−47.95849409	0

TABLE 10
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A7 (first time)	P6	70	0	15.2896811	15.2896811	*
	P7	70	7	−17.41205643	0
	P14	70	8	−23.40960491	0
	P13	70	8	−27.83962988	0
	P8	70	8	−28.82837783	0
	P11	70	10	−32.99655168	0
	P4	70	9	−33.19469986	0
	P2	70	10	−33.38898099	0
	P1	70	11	−34.80130196	0
	P12	70	10	−36.24259852	0
	P3	70	11	−39.32526735	0
	P9	70	13	−43.29871002	0
	P5	70	13	−49.12753269	0
	P10	70	15	−56.18590308	0
A7 (second time)	P6	70	0	11.7970069	11.7970069	*
	P14	70	4	−10.70902368	0
	P11	70	5	−13.03148311	0
	P10	70	5	−13.43526493	0
	P3	70	6	−16.78522565	0
	P4	70	6	−18.9232738	0
	P7	70	7	−19.88003447	0
	P1	70	7	−21.19917309	0
	P12	70	7	−23.13636389	0
	P9	70	8	−24.02601428	0
	P5	70	7	−24.4514439	0
	P13	70	8	−26.07694434	0
	P8	70	8	−28.31506629	0
	P2	70	9	−30.78718726	0
A7 (third time)	P6	70	0	14.62115201	14.62115201	*
	P10	70	5	−11.21567624	0
	P2	70	7	−18.18647739	0
	P14	70	7	−21.07956251	0
	P8	70	7	−21.93249154	0
	P13	70	7	−23.05755673	0
	P4	70	9	−27.52039187	0
	P12	70	9	−31.21901906	0
	P11	70	10	−33.33703069	0
	P9	70	10	−33.53516124	0
	P5	70	10	−37.18837849	0
	P7	70	12	−37.28057352	0
	P3	70	14	−49.19919001	0
	P1	70	16	−54.77701802	0

TABLE 11
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A8 (first time)	P7	70	0	13.10320746	13.10320746	*
	P2	70	4	−8.956399502	0
	P8	70	4	−10.23948827	0
	P9	70	5	−11.07601564	0
	P12	70	5	−15.40989744	0
	P11	70	6	−17.4642562	0
	P13	70	6	−17.77248274	0
	P4	70	5	−17.85254156	0
	P1	70	7	−19.24587582	0
	P6	70	7	−19.6448965	0
	P10	70	7	−23.4969286	0
	P14	70	10	−34.30083024	0
	P5	70	10	−36.74612421	0
	P3	70	11	−39.98816304	0
A8 (second time)	P7	70	1	7.365015135	7.365015135	*
	P13	70	3	−1.579783951	0
	P8	70	5	−13.00944639	0
	P10	70	7	−24.5714825	0
	P14	70	7	−26.08217613	0
	P1	70	9	−26.70300284	0
	P11	70	9	−30.12971363	0
	P6	70	10	−31.20134127	0
	P12	70	10	−32.19282515	0
	P5	70	10	−34.66088627	0
	P3	70	11	−35.89936238	0
	P4	70	11	−41.29975669	0
	P9	70	14	−49.39038553	0
	P2	70	14	−49.53079768	0
A8 (third time)	P7	70	0	19.15191948	19.15191948	*
	P9	70	4	−7.395052497	0
	P4	70	4	−9.782748152	0
	P8	70	5	−11.3115943	0
	P14	70	5	−14.06148357	0
	P11	70	6	−17.92732446	0
	P10	70	7	−20.78982904	0
	P12	70	8	−25.25783887	0
	P1	70	10	−27.46345305	0
	P2	70	10	−29.35133289	0
	P13	70	9	−29.88102583	0
	P3	70	10	−30.06052339	0
	P5	70	9	−34.17301755	0
	P6	70	11	−36.62510603	0

TABLE 12
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A9 (first time)	P8	70	0	10.27017646	9.819801286	*
	P13	70	2	0.450375171	0
	P12	70	3	−5.326807144	0
	P7	70	6	−19.58953025	0
	P6	70	8	−26.95996607	0
	P5	70	9	−27.43717105	0
	P11	70	8	−28.923148	0
	P9	70	9	−33.29007502	0
	P4	70	10	−35.58809353	0
	P3	70	10	−35.71232159	0
	P10	70	10	−35.79964605	0
	P14	70	10	−35.8232246	0
	P1	70	11	−36.88513713	0
	P2	70	12	−41.8278971	0
A9 (second time)	P8	70	0	8.711390253	8.711390253	*
	P14	70	4	−10.84782087	0
	P13	70	5	−12.80277026	0
	P12	70	6	−14.38907764	0
	P9	70	7	−21.18470542	0
	P7	70	8	−24.18278972	0
	P2	70	8	−25.19889071	0
	P6	70	8	−25.48349763	0
	P4	70	8	−26.93246427	0
	P10	70	8	−27.5707651	0
	P11	70	9	−29.79477172	0
	P5	70	9	−30.50062336	0
	P1	70	11	−38.06925615	0
	P3	70	15	−52.93814738	0
A9 (third time)	P8	70	0	11.09493779	11.09493779	*
	P14	70	3	−4.002206259	0
	P13	70	3	−7.423207529	0
	P9	70	4	−12.86862853	0
	P11	70	5	−16.33875378	0
	P5	70	5	−16.47391643	0
	P7	70	6	−16.69783305	0
	P4	70	6	−19.14631397	0
	P6	70	6	−20.14117199	0
	P12	70	7	−26.15151281	0
	P1	70	9	−26.99723958	0
	P10	70	8	−27.98366961	0
	P3	70	9	−28.31509725	0
	P2	70	9	−30.35807931	0

TABLE 13
Verification tests for paternity testing

	Candidate male	Number of	Number of			Confidence
Offspring SN	parent SN	typing sites	mismatched sites	LOD value	Δ	coefficient

A10 (first time)	P9	70	1	13.79585617	13.79585617	*
	P14	70	5	−8.717864064	0
	P7	70	5	−10.5135352	0
	P8	70	5	−14.36603191	0
	P11	70	8	−21.77191201	0
	P13	70	8	−26.36108471	0
	P3	70	9	−29.62516786	0
	P1	70	10	−30.90277195	0
	P4	70	10	−35.00326985	0
	P10	70	10	−36.09838327	0
	P6	70	11	−37.66695494	0
	P12	70	11	−38.48845812	0
	P5	70	11	−41.25969161	0
	P2	70	12	−43.02388195	0
A10 (second time)	P9	70	1	8.701582645	8.701582645	*
	P11	70	4	−7.975589439	0
	P4	70	5	−13.30957167	0
	P5	70	5	−16.92731292	0
	P8	70	7	−20.29594817	0
	P6	70	7	−20.64772855	0
	P14	70	7	−22.70047987	0
	P7	70	8	−23.73269357	0
	P10	70	8	−25.24322179	0
	P2	70	9	−31.92767407	0
	P1	70	10	−33.04279883	0
	P13	70	10	−33.57778844	0
	P12	70	11	−38.0287652	0
	P3	70	12	−42.89185259	0
A10 (third time)	P9	70	0	9.515947688	9.515947688	*
	P13	70	3	−8.686951703	0
	P7	70	5	−9.594593301	0
	P4	70	4	−11.53505627	0
	P12	70	5	−12.06219714	0
	P14	70	4	−12.70204571	0
	P11	70	5	−13.37686993	0
	P8	70	5	−14.35488138	0
	P5	70	5	−17.38586597	0
	P10	70	7	−25.41374906	0
	P1	70	8	−25.54819939	0
	P2	70	8	−27.79917	0
	P3	70	9	−32.02940943	0
	P6	70	9	−34.30218495	0

Although the above example has described the present disclosure in detail, it is only apart of, not all of, the examples of the present disclosure. Other examples may also be obtained by persons based on the example without creative efforts, and all of these examples shall fall within the protection scope of the present disclosure.